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Operators and solvers for high-performance computing.
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Failing tests with doctest enabled #22

Closed ghisvail closed 9 years ago

ghisvail commented 9 years ago

Hi Pierre,

Whilst refreshing the packaging for version 0.13.6, a portion of the test suite is now failing. It seems to be related to selected results within the doctest. 

I: pybuild base:170: cd /home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build; python2.7 -m nose --with-doctest 
/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/fft.py:28: PyOperatorsWarning: The pyFFTW library is not installed.
  warn('The pyFFTW library is not installed.', PyOperatorsWarning)
.......FF..F....FF..FF.......F.E..F.E
======================================================================
ERROR: Failure: ImportError (No module named pywt)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 420, in loadTestsFromName
    addr.filename, addr.module)
  File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/operators_pywt.py", line 8, in <module>
    import pywt
ImportError: No module named pywt

======================================================================
ERROR: Failure: ValueError (line 10 of the docstring for pyoperators.utils.misc.deprecated lacks blank after >>>: '>>>@deprecated')
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/nose/plugins/manager.py", line 154, in generate
    for r in result:
  File "/usr/lib/python2.7/dist-packages/nose/plugins/doctests.py", line 228, in loadTestsFromModule
    tests = self.finder.find(module)
  File "/usr/lib/python2.7/doctest.py", line 926, in find
    self._find(tests, obj, name, module, source_lines, globs, {})
  File "/usr/lib/python2.7/doctest.py", line 980, in _find
    globs, seen)
  File "/usr/lib/python2.7/doctest.py", line 968, in _find
    test = self._get_test(obj, name, module, globs, source_lines)
  File "/usr/lib/python2.7/doctest.py", line 1052, in _get_test
    filename, lineno)
  File "/usr/lib/python2.7/doctest.py", line 671, in get_doctest
    return DocTest(self.get_examples(string, name), globs,
  File "/usr/lib/python2.7/doctest.py", line 685, in get_examples
    return [x for x in self.parse(string, name)
  File "/usr/lib/python2.7/doctest.py", line 647, in parse
    self._parse_example(m, name, lineno)
  File "/usr/lib/python2.7/doctest.py", line 705, in _parse_example
    self._check_prompt_blank(source_lines, indent, name, lineno)
  File "/usr/lib/python2.7/doctest.py", line 792, in _check_prompt_blank
    line[indent:indent+3], line))
ValueError: line 10 of the docstring for pyoperators.utils.misc.deprecated lacks blank after >>>: '>>>@deprecated'

======================================================================
FAIL: Doctest: pyoperators.iterative.optimize.FminCG
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.iterative.optimize.FminCG
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 143, in FminCG

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 280, in pyoperators.iterative.optimize.FminCG
Failed example:
    res1 = optimize.fmin_cg(f, x0, fprime=gradf, args=args)
Expected nothing
Got:
    Optimization terminated successfully.
             Current function value: 1.617021
             Iterations: 2
             Function evaluations: 5
             Gradient evaluations: 5
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 281, in pyoperators.iterative.optimize.FminCG
Failed example:
    print 'res1 = ', res1
Expected:
    Optimization terminated successfully.
             Current function value: 1.617021
             Iterations: 2
             Function evaluations: 5
             Gradient evaluations: 5
    res1 =  [-1.80851064 -0.25531915]
Got:
    res1 =  [-1.80851064 -0.25531915]
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 299, in pyoperators.iterative.optimize.FminCG
Failed example:
    res2 = optimize.minimize(f, x0, jac=gradf, args=args,
                             method='CG', options=opts)
Expected:
    Optimization terminated successfully.
            Current function value: 1.617021
            Iterations: 2
            Function evaluations: 5
            Gradient evaluations: 5
Got:
    Optimization terminated successfully.
             Current function value: 1.617021
             Iterations: 2
             Function evaluations: 5
             Gradient evaluations: 5
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 306, in pyoperators.iterative.optimize.FminCG
Failed example:
    res2.x  # minimum found
Expected:
    array([-1.80851064 -0.25531915])
Got:
    array([-1.80851064, -0.25531915])

======================================================================
FAIL: Doctest: pyoperators.iterative.optimize.FminCOBYLA
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.iterative.optimize.FminCOBYLA
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 143, in FminCOBYLA

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 263, in pyoperators.iterative.optimize.FminCOBYLA
Failed example:
    fmin_cobyla(objective, [0.0, 0.1], [constr1, constr2], rhoend=1e-7)
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.iterative.optimize.FminCOBYLA[3]>", line 1, in <module>
        fmin_cobyla(objective, [0.0, 0.1], [constr1, constr2], rhoend=1e-7)
    NameError: name 'fmin_cobyla' is not defined

======================================================================
FAIL: Doctest: pyoperators.linear.DenseOperator
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.linear.DenseOperator
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 273, in DenseOperator

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 299, in pyoperators.linear.DenseOperator
Failed example:
    print(op.T(op(input)))
Expected:
    [[ 1.  0.]
     [ 0.  1.]
     [-1.  0.]
     [ 0. -1.]]
Got:
    [[  1.00000000e+00  -1.01465364e-17]
     [ -1.01465364e-17   1.00000000e+00]
     [ -1.00000000e+00   1.01465364e-17]
     [  1.01465364e-17  -1.00000000e+00]]

======================================================================
FAIL: Doctest: pyoperators.linear.Rotation2dOperator
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.linear.Rotation2dOperator
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 743, in Rotation2dOperator

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 757, in pyoperators.linear.Rotation2dOperator
Failed example:
    r([1, 0])
Expected nothing
Got:
    array([[  7.07106781e-01,   7.07106781e-01],
           [  6.12323400e-17,   1.00000000e+00]])

======================================================================
FAIL: Doctest: pyoperators.linear.Rotation3dOperator
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.linear.Rotation3dOperator
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 782, in Rotation3dOperator

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 823, in pyoperators.linear.Rotation3dOperator
Failed example:
    print(r2([1, 0, 0]))
Expected:
    [ 0.49240388  0.58682409 -0.64278761]d
Got:
    [ 0.49240388  0.58682409 -0.64278761]

======================================================================
FAIL: Doctest: pyoperators.linear.SymmetricBandToeplitzOperator
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.linear.SymmetricBandToeplitzOperator
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1369, in SymmetricBandToeplitzOperator

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1378, in pyoperators.linear.SymmetricBandToeplitzOperator
Failed example:
    N = SymmetricBandToeplitzOperator(5, [3, 2, 1, 1])
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.linear.SymmetricBandToeplitzOperator[0]>", line 1, in <module>
        N = SymmetricBandToeplitzOperator(5, [3, 2, 1, 1])
      File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1410, in __init__
        fplan = pyfftw.FFTW(
    NameError: global name 'pyfftw' is not defined
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1379, in pyoperators.linear.SymmetricBandToeplitzOperator
Failed example:
    print(N.todense().astype(int))
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.linear.SymmetricBandToeplitzOperator[1]>", line 1, in <module>
        print(N.todense().astype(int))
    NameError: name 'N' is not defined

======================================================================
FAIL: Doctest: pyoperators.linear.TridiagonalOperator.__init__
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.linear.TridiagonalOperator.__init__
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1027, in __init__

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1049, in pyoperators.linear.TridiagonalOperator.__init__
Failed example:
    import operators
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.linear.TridiagonalOperator.__init__[0]>", line 1, in <module>
        import operators
    ImportError: No module named operators
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1050, in pyoperators.linear.TridiagonalOperator.__init__
Failed example:
    T = operators.TridiagonalOperator([1, 2, 3], [4, 5], [6, 7])
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.linear.TridiagonalOperator.__init__[1]>", line 1, in <module>
        T = operators.TridiagonalOperator([1, 2, 3], [4, 5], [6, 7])
    NameError: name 'operators' is not defined
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1051, in pyoperators.linear.TridiagonalOperator.__init__
Failed example:
    T.todense()
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.linear.TridiagonalOperator.__init__[2]>", line 1, in <module>
        T.todense()
    NameError: name 'T' is not defined

======================================================================
FAIL: Doctest: pyoperators.nonlinear.NumexprOperator
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.nonlinear.NumexprOperator
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/nonlinear.py", line 603, in NumexprOperator

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/nonlinear.py", line 620, in pyoperators.nonlinear.NumexprOperator
Failed example:
    print op(1) == np.exp(2.2)
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.nonlinear.NumexprOperator[2]>", line 1
        print op(1) == np.exp(2.2)
               ^
    SyntaxError: invalid syntax

======================================================================
FAIL: Doctest: pyoperators.rules.RuleManager
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/doctest.py", line 2226, in runTest
    raise self.failureException(self.format_failure(new.getvalue()))
AssertionError: Failed doctest test for pyoperators.rules.RuleManager
  File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 255, in RuleManager

----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 268, in pyoperators.rules.RuleManager
Failed example:
    from pyoperators.rules import rules
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.rules.RuleManager[0]>", line 1, in <module>
        from pyoperators.rules import rules
    ImportError: cannot import name rules
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 269, in pyoperators.rules.RuleManager
Failed example:
    rules['none'] = True
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.rules.RuleManager[1]>", line 1, in <module>
        rules['none'] = True
    NameError: name 'rules' is not defined
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 271, in pyoperators.rules.RuleManager
Failed example:
    with rules(none=True):
        print(rules['none'])
        # in this context, operator simplification rules are inhibited
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.rules.RuleManager[2]>", line 1, in <module>
        with rules(none=True):
    NameError: name 'rules' is not defined
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 274, in pyoperators.rules.RuleManager
Failed example:
    print(rules['none'])
Exception raised:
    Traceback (most recent call last):
      File "/usr/lib/python2.7/doctest.py", line 1315, in __run
        compileflags, 1) in test.globs
      File "<doctest pyoperators.rules.RuleManager[3]>", line 1, in <module>
        print(rules['none'])
    NameError: name 'rules' is not defined
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 279, in pyoperators.rules.RuleManager
Failed example:
    print(rule_manager['none'])
Expected nothing
Got:
    False
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 280, in pyoperators.rules.RuleManager
Failed example:
    with rule_manager(none=True) as new_rule_manager:
        print(rule_manager['none'])
        with new_rule_manager(none=False):
            print(rule_manager['none'])
        print(rule_manager['none'])
Expected nothing
Got:
    True
    False
    True
----------------------------------------------------------------------
File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 285, in pyoperators.rules.RuleManager
Failed example:
    print(rule_manager['none'])
Expected:
    False
    True
    False
    True
    False
Got:
    False

----------------------------------------------------------------------
Ran 37 tests in 0.507s

FAILED (errors=2, failures=9)

Could you please update the tests so that calling nose --with-doctest succeeds.

Thanks, Ghis

pchanial commented 9 years ago

OK, thanks for the report, I will investigate it.

2015-08-24 9:06 GMT+02:00 Ghislain Antony Vaillant <notifications@github.com

:

Hi Pierre,

Whilst refreshing the packaging for version 0.13.6, a portion of the test suite is now failing. It seems to be related to selected results within the doctest.

I: pybuild base:170: cd /home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build; python2.7 -m nose --with-doctest /home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/fft.py:28: PyOperatorsWarning: The pyFFTW library is not installed. warn('The pyFFTW library is not installed.', PyOperatorsWarning)

.......FF..F....FF..FF.......F.E..F.E

ERROR: Failure: ImportError (No module named pywt)

Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 420, in loadTestsFromName addr.filename, addr.module) File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in importFromPath return self.importFromDir(dir_path, fqname) File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/operators_pywt.py", line 8, in import pywt ImportError: No module named pywt

ERROR: Failure: ValueError (line 10 of the docstring for pyoperators.utils.misc.deprecated lacks blank after >>>: '>>>@deprecated')

Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/plugins/manager.py", line 154, in generate for r in result: File "/usr/lib/python2.7/dist-packages/nose/plugins/doctests.py", line 228, in loadTestsFromModule tests = self.finder.find(module) File "/usr/lib/python2.7/doctest.py", line 926, in find self._find(tests, obj, name, module, source_lines, globs, {}) File "/usr/lib/python2.7/doctest.py", line 980, in _find globs, seen) File "/usr/lib/python2.7/doctest.py", line 968, in _find test = self._get_test(obj, name, module, globs, source_lines) File "/usr/lib/python2.7/doctest.py", line 1052, in _get_test filename, lineno) File "/usr/lib/python2.7/doctest.py", line 671, in get_doctest return DocTest(self.get_examples(string, name), globs, File "/usr/lib/python2.7/doctest.py", line 685, in get_examples return [x for x in self.parse(string, name) File "/usr/lib/python2.7/doctest.py", line 647, in parse self._parse_example(m, name, lineno) File "/usr/lib/python2.7/doctest.py", line 705, in _parse_example self._check_prompt_blank(source_lines, indent, name, lineno) File "/usr/lib/python2.7/doctest.py", line 792, in _check_prompt_blank line[indent:indent+3], line)) ValueError: line 10 of the docstring for pyoperators.utils.misc.deprecated lacks blank after >>>: '>>>@deprecated'

FAIL: Doctest: pyoperators.iterative.optimize.FminCG

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.iterative.optimize.FminCG File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 143, in FminCG

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 280, in pyoperators.iterative.optimize.FminCG Failed example: res1 = optimize.fmin_cg(f, x0, fprime=gradf, args=args) Expected nothing Got: Optimization terminated successfully. Current function value: 1.617021 Iterations: 2 Function evaluations: 5

Gradient evaluations: 5

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 281, in pyoperators.iterative.optimize.FminCG Failed example: print 'res1 = ', res1 Expected: Optimization terminated successfully. Current function value: 1.617021 Iterations: 2 Function evaluations: 5 Gradient evaluations: 5 res1 = [-1.80851064 -0.25531915] Got:

res1 = [-1.80851064 -0.25531915]

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 299, in pyoperators.iterative.optimize.FminCG Failed example: res2 = optimize.minimize(f, x0, jac=gradf, args=args, method='CG', options=opts) Expected: Optimization terminated successfully. Current function value: 1.617021 Iterations: 2 Function evaluations: 5 Gradient evaluations: 5 Got: Optimization terminated successfully. Current function value: 1.617021 Iterations: 2 Function evaluations: 5

Gradient evaluations: 5

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 306, in pyoperators.iterative.optimize.FminCG Failed example: res2.x # minimum found Expected: array([-1.80851064 -0.25531915]) Got: array([-1.80851064, -0.25531915])

FAIL: Doctest: pyoperators.iterative.optimize.FminCOBYLA

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.iterative.optimize.FminCOBYLA File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 143, in FminCOBYLA

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/iterative/optimize.py", line 263, in pyoperators.iterative.optimize.FminCOBYLA Failed example: fmin_cobyla(objective, [0.0, 0.1], [constr1, constr2], rhoend=1e-7) Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.iterative.optimize.FminCOBYLA[3]>", line 1, in fmin_cobyla(objective, [0.0, 0.1], [constr1, constr2], rhoend=1e-7) NameError: name 'fmin_cobyla' is not defined

FAIL: Doctest: pyoperators.linear.DenseOperator

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.linear.DenseOperator File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 273, in DenseOperator

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 299, in pyoperators.linear.DenseOperator Failed example: print(op.T(op(input))) Expected: [[ 1. 0.] [ 0. 1.] [-1. 0.] [ 0. -1.]] Got: [[ 1.00000000e+00 -1.01465364e-17] [ -1.01465364e-17 1.00000000e+00] [ -1.00000000e+00 1.01465364e-17] [ 1.01465364e-17 -1.00000000e+00]]

FAIL: Doctest: pyoperators.linear.Rotation2dOperator

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.linear.Rotation2dOperator File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 743, in Rotation2dOperator

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 757, in pyoperators.linear.Rotation2dOperator Failed example: r([1, 0]) Expected nothing Got: array([[ 7.07106781e-01, 7.07106781e-01], [ 6.12323400e-17, 1.00000000e+00]])

FAIL: Doctest: pyoperators.linear.Rotation3dOperator

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.linear.Rotation3dOperator File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 782, in Rotation3dOperator

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 823, in pyoperators.linear.Rotation3dOperator Failed example: print(r2([1, 0, 0])) Expected: [ 0.49240388 0.58682409 -0.64278761]d Got: [ 0.49240388 0.58682409 -0.64278761]

FAIL: Doctest: pyoperators.linear.SymmetricBandToeplitzOperator

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.linear.SymmetricBandToeplitzOperator File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1369, in SymmetricBandToeplitzOperator

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1378, in pyoperators.linear.SymmetricBandToeplitzOperator Failed example: N = SymmetricBandToeplitzOperator(5, [3, 2, 1, 1]) Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in run compileflags, 1) in test.globs File "<doctest pyoperators.linear.SymmetricBandToeplitzOperator[0]>", line 1, in N = SymmetricBandToeplitzOperator(5, [3, 2, 1, 1]) File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1410, in __init fplan = pyfftw.FFTW(

NameError: global name 'pyfftw' is not defined

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1379, in pyoperators.linear.SymmetricBandToeplitzOperator Failed example: print(N.todense().astype(int)) Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.linear.SymmetricBandToeplitzOperator[1]>", line 1, in print(N.todense().astype(int)) NameError: name 'N' is not defined

FAIL: Doctest: pyoperators.linear.TridiagonalOperator.init

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.linear.TridiagonalOperator.init File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1027, in init

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1049, in pyoperators.linear.TridiagonalOperator.init Failed example: import operators Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in run compileflags, 1) in test.globs File "<doctest pyoperators.linear.TridiagonalOperator.__init[0]>", line 1, in import operators

ImportError: No module named operators

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1050, in pyoperators.linear.TridiagonalOperator.init Failed example: T = operators.TridiagonalOperator([1, 2, 3], [4, 5], [6, 7]) Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in run compileflags, 1) in test.globs File "<doctest pyoperators.linear.TridiagonalOperator.__init[1]>", line 1, in T = operators.TridiagonalOperator([1, 2, 3], [4, 5], [6, 7])

NameError: name 'operators' is not defined

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/linear.py", line 1051, in pyoperators.linear.TridiagonalOperator.init Failed example: T.todense() Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in run compileflags, 1) in test.globs File "<doctest pyoperators.linear.TridiagonalOperator.__init[2]>", line 1, in T.todense() NameError: name 'T' is not defined

FAIL: Doctest: pyoperators.nonlinear.NumexprOperator

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.nonlinear.NumexprOperator File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/nonlinear.py", line 603, in NumexprOperator

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/nonlinear.py", line 620, in pyoperators.nonlinear.NumexprOperator Failed example: print op(1) == np.exp(2.2) Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.nonlinear.NumexprOperator[2]>", line 1 print op(1) == np.exp(2.2) ^ SyntaxError: invalid syntax

FAIL: Doctest: pyoperators.rules.RuleManager

Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 2226, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for pyoperators.rules.RuleManager File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 255, in RuleManager

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 268, in pyoperators.rules.RuleManager Failed example: from pyoperators.rules import rules Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.rules.RuleManager[0]>", line 1, in from pyoperators.rules import rules

ImportError: cannot import name rules

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 269, in pyoperators.rules.RuleManager Failed example: rules['none'] = True Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.rules.RuleManager[1]>", line 1, in rules['none'] = True

NameError: name 'rules' is not defined

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 271, in pyoperators.rules.RuleManager Failed example: with rules(none=True): print(rules['none'])

in this context, operator simplification rules are inhibited

Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.rules.RuleManager[2]>", line 1, in with rules(none=True):

NameError: name 'rules' is not defined

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 274, in pyoperators.rules.RuleManager Failed example: print(rules['none']) Exception raised: Traceback (most recent call last): File "/usr/lib/python2.7/doctest.py", line 1315, in __run compileflags, 1) in test.globs File "<doctest pyoperators.rules.RuleManager[3]>", line 1, in print(rules['none'])

NameError: name 'rules' is not defined

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 279, in pyoperators.rules.RuleManager Failed example: print(rule_manager['none']) Expected nothing Got:

False

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 280, in pyoperators.rules.RuleManager Failed example: with rule_manager(none=True) as new_rule_manager: print(rule_manager['none']) with new_rule_manager(none=False): print(rule_manager['none']) print(rule_manager['none']) Expected nothing Got: True False

True

File "/home/ghislain/debian/packages/build-area/pyoperators-0.13.6/.pybuild/pythonX.Y_2.7/build/pyoperators/rules.py", line 285, in pyoperators.rules.RuleManager Failed example: print(rule_manager['none']) Expected: False True False True False Got: False

Ran 37 tests in 0.507s

FAILED (errors=2, failures=9)

Could you please update the tests so that calling nose --with-doctest succeeds.

Thanks, Ghis

— Reply to this email directly or view it on GitHub https://github.com/pchanial/pyoperators/issues/22.

La propagande est à la démocratie ce que la violence est à la dictature. Noam Chomsky

ghisvail commented 9 years ago

As a result of the FTBFS, the package is flagged for removal in Debian testing within the next few days. Please let me know of a quick / temporary patch that could be applied now if you are aware of one, whilst you work on fixing this.

Many thanks.

pchanial commented 9 years ago

OK, I'm on it.

2015-09-15 9:41 GMT+02:00 Ghislain Antony Vaillant <notifications@github.com

:

As a result of the FTBFS, the package is flagged for removal in Debian testing within the next few days. Please let me know of a quick / temporary patch that could be applied now if you are aware of one, whilst you work on fixing this.

Many thanks.

— Reply to this email directly or view it on GitHub https://github.com/pchanial/pyoperators/issues/22#issuecomment-140308405 .

La propagande est à la démocratie ce que la violence est à la dictature. Noam Chomsky

pchanial commented 9 years ago

The doctest should be fixed now, with or without the pyfftw or pywt package installed. Thanks!

ghisvail commented 9 years ago

Great, can you push a release tarball of 0.13.7 to pypi then?

pchanial commented 9 years ago

Done!

2015-09-16 19:25 GMT+02:00 Ghislain Antony Vaillant < notifications@github.com>:

Great, can you push a release tarball of 0.13.7 to pypi then?

— Reply to this email directly or view it on GitHub https://github.com/pchanial/pyoperators/issues/22#issuecomment-140811673 .

La propagande est à la démocratie ce que la violence est à la dictature. Noam Chomsky

ghisvail commented 9 years ago

I am getting this:

python2.7 -m nose 
/tmp/buildd/pyoperators-0.13.7/.pybuild/pythonX.Y_2.7/build/pyoperators/fft.py:26: PyOperatorsWarning: The pyFFTW library is not installed.
  warn('The pyFFTW library is not installed.', PyOperatorsWarning)
E
======================================================================
ERROR: Failure: NameError (name 'pywt' is not defined)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 420, in loadTestsFromName
    addr.filename, addr.module)
  File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/tmp/buildd/pyoperators-0.13.7/.pybuild/pythonX.Y_2.7/build/pyoperators/__init__.py", line 20, in <module>
    from .operators_pywt import *
  File "/tmp/buildd/pyoperators-0.13.7/.pybuild/pythonX.Y_2.7/build/pyoperators/operators_pywt.py", line 29, in <module>
    for l in pywt.wavelist():
NameError: name 'pywt' is not defined

----------------------------------------------------------------------
Ran 1 test in 0.109s

FAILED (errors=1)

Any clues for a fix?

FYI, I am not building with either pyFFTW or pywt.

pchanial commented 9 years ago

ooops... my bad! I've uploaded 0.13.8 to fix that. Btw pywt should be added as a recommended dependency. And don't you think that pyFFTW should be made a mandatory dependency for debian's python-pyoperators ?

2015-09-16 21:11 GMT+02:00 Ghislain Antony Vaillant < notifications@github.com>:

I am getting this:

python2.7 -m nose /tmp/buildd/pyoperators-0.13.7/.pybuild/pythonX.Y_2.7/build/pyoperators/fft.py:26: PyOperatorsWarning: The pyFFTW library is not installed. warn('The pyFFTW library is not installed.', PyOperatorsWarning)

E

ERROR: Failure: NameError (name 'pywt' is not defined)

Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 420, in loadTestsFromName addr.filename, addr.module) File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in importFromPath return self.importFromDir(dir_path, fqname) File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/tmp/buildd/pyoperators-0.13.7/.pybuild/pythonX.Y_2.7/build/pyoperators/init.py", line 20, in from .operators_pywt import * File "/tmp/buildd/pyoperators-0.13.7/.pybuild/pythonX.Y_2.7/build/pyoperators/operators_pywt.py", line 29, in for l in pywt.wavelist(): NameError: name 'pywt' is not defined

Ran 1 test in 0.109s

FAILED (errors=1)

Any clues for a fix?

FYI, I am not building with either pyFFTW or pywt.

— Reply to this email directly or view it on GitHub https://github.com/pchanial/pyoperators/issues/22#issuecomment-140849695 .

La propagande est à la démocratie ce que la violence est à la dictature. Noam Chomsky