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nedbat / coveragepy

The code coverage tool for Python
https://coverage.readthedocs.io
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same issue #161 coverage warning "no data was collected" issue Create issue Issue #161 #653

Closed nedbat closed 1 year ago

nedbat commented 6 years ago

Originally reported by Anonymous

the error raise "coverage warning "no data was collected" because .pyx file are not analysed by coverage.py. I do not understand why it's not working

I used in setup.py file for compilation
define_macros=[('CYTHON_TRACE', '1'), ('CYTHON_TRACE_NOGIL','1')], compiler_directives={'embedsignature': True, 'linetrace': True, Do I miss something

nedbat commented 6 years ago

Original comment by domieb (Bitbucket: domieb, GitHub: Unknown)

Unfortunately the project is not yet on a public github, I copy my setup at the end.

I compil with: python3 setup.py build_ext --inplace --define CYTHON_TRACE

and i expect the followed command for test coverge :

python3 -m nose iw/test/test_intertwining_wavelet.py or python3 -m unittest iw/test/test_intertwining_wavelet.py do not leads to code coverage of sources

Do you see something wrong , any thing that can help

thanks dom

part of setup.py file:

import re, os, sys import shutil from distutils.core import setup, Extension from distutils.command.clean import clean as _clean from distutils.dir_util import remove_tree from distutils.command.sdist import sdist

Test if Cython is installed

USE_CYTHON = True

try: from Cython.Distutils import build_ext except: USE_CYTHON = False raise 'Cannot build iw without cython' sys.exit()

try: import numpy except: raise 'Cannot build iw without numpy' sys.exit()

PATH_INCLUDES = [numpy.get_include(), '.', './iw/test', 'iw/multiresolution', './iw', './iw/reconstruction', './iw/function_fab', './iw/diaconis_fill', './iw/kernel_c']

PATH_LIBRARIES = ['build', os.path.abspath("./kernel_c"), '.'] # ICI+'/lib' LINK_LIBRARIES = ["m", ]

EXTRA_COMPIL_ARGS = ['-g', ]

ext_modules = [Extension("iw.function_fab.stairsum", ["iw/function_fab/stairsum.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.diaconis_fill.complementschur", ["iw/diaconis_fill/complementschur.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.diaconis_fill.cal_beta_gamma", ["iw/diaconis_fill/cal_beta_gamma.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.multiresolution.sparsify_matrix", ["iw/multiresolution/sparsify_matrix.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.multiresolution.tab_one_step_Lambda", ["iw/multiresolution/tab_one_step_Lambda.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.reconstruction.operateur_reconstruction_one_step", ["iw/reconstruction/operateur_reconstruction_one_step.pyx",], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.graph_c", ["iw/graph_c.pyx", "iw/kernel_c/cuore.c", "iw/kernel_c/lodge.c", "iw/kernel_c/rforest_internal.c"], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, include_path=PATH_INCLUDES, libraries=LINK_LIBRARIES, extra_compile_args=EXTRA_COMPIL_ARGS, ), Extension("iw.multiresolution.struct_multires_Lbarre", ["iw/multiresolution/struct_multires_Lbarre.pyx", "iw/reconstruction/operateur_reconstruction_one_step.pyx", "iw/graph_c.pyx", "iw/kernel_c/cuore.c", "iw/kernel_c/lodge.c", "iw/kernel_c/rforest_internal.c"], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, include_path=PATH_INCLUDES, libraries=LINK_LIBRARIES, extra_compile_args=EXTRA_COMPIL_ARGS, ), Extension("iw.reconstruction.tab_compute_multires_coeffs_sparse", ["iw/reconstruction/tab_compute_multires_coeffs_sparse.pyx", "iw/multiresolution/struct_multires_Lbarre.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, ), Extension("iw.reconstruction.tab_reconstruction_multires", ["iw/reconstruction/tab_reconstruction_multires.pyx", "iw/multiresolution/struct_multires_Lbarre.pyx", ], include_dirs=PATH_INCLUDES, library_dirs=PATH_LIBRARIES, libraries=LINK_LIBRARIES, include_path=PATH_INCLUDES, extra_compile_args=EXTRA_COMPIL_ARGS,

                     ),
           Extension("iw.intertwining_wavelet",
                     ["iw/intertwining_wavelet.pyx",
                      "iw/graph_c.pyx",
                      "iw/multiresolution/struct_multires_Lbarre.pyx",
                      "iw/reconstruction/tab_reconstruction_multires.pyx",
                      "iw/reconstruction/tab_compute_multires_coeffs_sparse.pyx", "iw/kernel_c/cuore.c", "iw/kernel_c/lodge.c",
                      "iw/kernel_c/rforest_internal.c"],
                     include_dirs=PATH_INCLUDES,
                     library_dirs=PATH_LIBRARIES,
                     libraries=LINK_LIBRARIES,
                     include_path=PATH_INCLUDES,
                     extra_compile_args=EXTRA_COMPIL_ARGS,
                     ), ]

####################

Setup method

#################### def setup_package(): """ Setup function"""

set version

VERSION = get_version()
iw_dir = 'iw'
set_version(iw_dir, VERSION)
setup(
     name="IntertwiningWavelet",
     version=VERSION,
     description="IntertwiningWavelet : Pyramidal algorithms for wavelett decomposition on Graph",
     author="Labex Archimede AMU",
     author_email="",
     packages=['iw', 'iw.test', 'iw.function_fab',
               'iw.diaconis_fill', 'iw.multiresolution',
               'iw.reconstruction'],
     package_dir={'iw': 'iw',
                  'iw.function_fab': 'iw/function_fab',
                  'iw.diaconis_fill': 'iw/diaconis_fill',
                  'iw.multiresolution': 'iw/multiresolution',
                  'iw.reconstruction': 'iw/reconstruction',
                  },
     package_data={'iw': ['*.pxd'], 'iw.function_fab': ['*.pxd'],
                   'iw.diaconis_fill': ['*.pxd'], 'iw.multiresolution': ['*.pxd'],
                   'iw.reconstruction': ['*.pxd'], },
     ext_modules=ext_modules,
     install_requires=['numpy>=1.8', 'scipy>=0.16'],
     test_suite='nose.collector',
     tests_require=['nose', 'coverage'],
     define_macros=[('CYTHON_TRACE', '1'), ('CYTHON_TRACE_NOGIL', '1')],
     compiler_directives={'embedsignature': True, 'linetrace': True,
                          'binding': True, 'profile': True, },
     cmdclass={'build_ext': build_ext, 'clean': clean, 'sdist': m_sdist},
)

and .coveragerc file:

.coveragerc to control coverage.py

[run] branch = True plugins = Cython.Coverage source = iw

include = /iw/

[report]

Regexes for lines to exclude from consideration

exclude_lines =

Have to re-enable the standard pragma

pragma: no cover

# Don't complain about missing debug-only code:
def __repr__
if self\.debug

# Don't complain if tests don't hit defensive assertion code:
raise AssertionError
raise NotImplementedError

# Don't complain if non-runnable code isn't run:
if 0:
if __name__ == .__main__.:

ignore_errors = True

[paths]

source = .

./iw

./iw/multiresolution

./iw/reconstruction

./iw/diaconis_fill

./iw/function_fab

nedbat commented 6 years ago

I need a way to reproduce the problem. Do you have a link to a repo that I could clone to try it myself?

webknjaz commented 4 years ago

The reporter on this is unavailable so there's probably no need to keep this issue open. FTR this might've been an instance of the Cython coverage plugin bug: https://github.com/cython/cython/pull/3648.