QInfer/python-qinfer

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src/qinfer/ale.py

Summary

Maintainability
A
2 hrs
Test Coverage

Cyclomatic complexity is too high in method __init__. (10)
Open

    @due.dcite(
        Doi("10.1103/PhysRevLett.112.130402"),
        description="Adaptive likelihood estimation",
        tags=["implementation"]
    )
Severity: Minor
Found in src/qinfer/ale.py by radon

Cyclomatic Complexity

Cyclomatic Complexity corresponds to the number of decisions a block of code contains plus 1. This number (also called McCabe number) is equal to the number of linearly independent paths through the code. This number can be used as a guide when testing conditional logic in blocks.

Radon analyzes the AST tree of a Python program to compute Cyclomatic Complexity. Statements have the following effects on Cyclomatic Complexity:

Construct Effect on CC Reasoning
if +1 An if statement is a single decision.
elif +1 The elif statement adds another decision.
else +0 The else statement does not cause a new decision. The decision is at the if.
for +1 There is a decision at the start of the loop.
while +1 There is a decision at the while statement.
except +1 Each except branch adds a new conditional path of execution.
finally +0 The finally block is unconditionally executed.
with +1 The with statement roughly corresponds to a try/except block (see PEP 343 for details).
assert +1 The assert statement internally roughly equals a conditional statement.
Comprehension +1 A list/set/dict comprehension of generator expression is equivalent to a for loop.
Boolean Operator +1 Every boolean operator (and, or) adds a decision point.

Source: http://radon.readthedocs.org/en/latest/intro.html

Function __init__ has a Cognitive Complexity of 9 (exceeds 5 allowed). Consider refactoring.
Open

    def __init__(self, simulator,
        error_tol=1e-2, min_samp=10, samp_step=10,
        est_hedge=0.509, adapt_hedge=0.509
    ):
        
Severity: Minor
Found in src/qinfer/ale.py - About 55 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function __init__ has 6 arguments (exceeds 4 allowed). Consider refactoring.
Open

    def __init__(self, simulator,
Severity: Minor
Found in src/qinfer/ale.py - About 45 mins to fix

    FIXME found
    Open

            # FIXME: at present, will proceed until ALL model experiment pairs
    Severity: Minor
    Found in src/qinfer/ale.py by fixme

    Similar blocks of code found in 3 locations. Consider refactoring.
    Open

            if not (simulator.is_n_outcomes_constant and simulator.n_outcomes(None) == 2):
                raise ValueError("Decorated model must be a two-outcome model.")
    Severity: Major
    Found in src/qinfer/ale.py and 2 other locations - About 40 mins to fix
    src/qinfer/derived_models.py on lines 240..241
    src/qinfer/derived_models.py on lines 400..401

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 34.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Line too long (95 > 79 characters)
    Open

            return self.underlying_model.simulate_experiment(modelparams, expparams, repeat=repeat)
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Indentation is not a multiple of 4 (comment)
    Open

                                              # number of 1s.
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Use indent_size (PEP8 says 4) spaces per indentation level.

    For really old code that you don't want to mess up, you can continue
    to use 8-space tabs.
    
    Okay: a = 1
    Okay: if a == 0:\n    a = 1
    E111:   a = 1
    E114:   # a = 1
    
    Okay: for item in items:\n    pass
    E112: for item in items:\npass
    E115: for item in items:\n# Hi\n    pass
    
    Okay: a = 1\nb = 2
    E113: a = 1\n    b = 2
    E116: a = 1\n    # b = 2

    Continuation line under-indented for visual indent
    Open

            error_tol=1e-2, min_samp=10, samp_step=10,
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Continuation lines indentation.

    Continuation lines should align wrapped elements either vertically
    using Python's implicit line joining inside parentheses, brackets
    and braces, or using a hanging indent.
    
    When using a hanging indent these considerations should be applied:
    - there should be no arguments on the first line, and
    - further indentation should be used to clearly distinguish itself
      as a continuation line.
    
    Okay: a = (\n)
    E123: a = (\n    )
    
    Okay: a = (\n    42)
    E121: a = (\n   42)
    E122: a = (\n42)
    E123: a = (\n    42\n    )
    E124: a = (24,\n     42\n)
    E125: if (\n    b):\n    pass
    E126: a = (\n        42)
    E127: a = (24,\n      42)
    E128: a = (24,\n    42)
    E129: if (a or\n    b):\n    pass
    E131: a = (\n    42\n 24)

    Blank line contains whitespace
    Open

        
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    At least two spaces before inline comment
    Open

                n += np.sum(sim_data, axis=0) # Sum over the outcomes axis to find the
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Separate inline comments by at least two spaces.

    An inline comment is a comment on the same line as a statement.
    Inline comments should be separated by at least two spaces from the
    statement. They should start with a # and a single space.
    
    Each line of a block comment starts with a # and a single space
    (unless it is indented text inside the comment).
    
    Okay: x = x + 1  # Increment x
    Okay: x = x + 1    # Increment x
    Okay: # Block comment
    E261: x = x + 1 # Increment x
    E262: x = x + 1  #Increment x
    E262: x = x + 1  #  Increment x
    E265: #Block comment
    E266: ### Block comment

    Line too long (86 > 79 characters)
    Open

                raise ValueError("Minimum number of samples (min_samp) must be positive.")
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Closing bracket does not match visual indentation
    Open

        ):
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Continuation lines indentation.

    Continuation lines should align wrapped elements either vertically
    using Python's implicit line joining inside parentheses, brackets
    and braces, or using a hanging indent.
    
    When using a hanging indent these considerations should be applied:
    - there should be no arguments on the first line, and
    - further indentation should be used to clearly distinguish itself
      as a continuation line.
    
    Okay: a = (\n)
    E123: a = (\n    )
    
    Okay: a = (\n    42)
    E121: a = (\n   42)
    E122: a = (\n42)
    E123: a = (\n    42\n    )
    E124: a = (24,\n     42\n)
    E125: if (\n    b):\n    pass
    E126: a = (\n        42)
    E127: a = (24,\n      42)
    E128: a = (24,\n    42)
    E129: if (a or\n    b):\n    pass
    E131: a = (\n    42\n 24)

    Line too long (102 > 79 characters)
    Open

                error_est_p1 = binom_est_error(binom_est_p(n, N, self._adapt_hedge), N, self._adapt_hedge)
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Blank line contains whitespace
    Open

        
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Unexpected indentation (comment)
    Open

                                              # number of 1s.
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Use indent_size (PEP8 says 4) spaces per indentation level.

    For really old code that you don't want to mess up, you can continue
    to use 8-space tabs.
    
    Okay: a = 1
    Okay: if a == 0:\n    a = 1
    E111:   a = 1
    E114:   # a = 1
    
    Okay: for item in items:\n    pass
    E112: for item in items:\npass
    E115: for item in items:\n# Hi\n    pass
    
    Okay: a = 1\nb = 2
    E113: a = 1\n    b = 2
    E116: a = 1\n    # b = 2

    Line too long (80 > 79 characters)
    Open

        :param float error_tol: Allowed error in the estimated likelihood. Note that
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Continuation line under-indented for visual indent
    Open

            est_hedge=0.509, adapt_hedge=0.509
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Continuation lines indentation.

    Continuation lines should align wrapped elements either vertically
    using Python's implicit line joining inside parentheses, brackets
    and braces, or using a hanging indent.
    
    When using a hanging indent these considerations should be applied:
    - there should be no arguments on the first line, and
    - further indentation should be used to clearly distinguish itself
      as a continuation line.
    
    Okay: a = (\n)
    E123: a = (\n    )
    
    Okay: a = (\n    42)
    E121: a = (\n   42)
    E122: a = (\n42)
    E123: a = (\n    42\n    )
    E124: a = (24,\n     42\n)
    E125: if (\n    b):\n    pass
    E126: a = (\n        42)
    E127: a = (24,\n      42)
    E128: a = (24,\n    42)
    E129: if (a or\n    b):\n    pass
    E131: a = (\n    42\n 24)

    Blank line contains whitespace
    Open

            
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Line too long (86 > 79 characters)
    Open

            if not (simulator.is_n_outcomes_constant and simulator.n_outcomes(None) == 2):
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Blank line contains whitespace
    Open

            
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Multiple statements on one line (colon)
    Open

                if np.all(error_est_p1 < self._error_tol): break
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Compound statements (on the same line) are generally discouraged.

    While sometimes it's okay to put an if/for/while with a small body
    on the same line, never do this for multi-clause statements.
    Also avoid folding such long lines!
    
    Always use a def statement instead of an assignment statement that
    binds a lambda expression directly to a name.
    
    Okay: if foo == 'blah':\n    do_blah_thing()
    Okay: do_one()
    Okay: do_two()
    Okay: do_three()
    
    E701: if foo == 'blah': do_blah_thing()
    E701: for x in lst: total += x
    E701: while t < 10: t = delay()
    E701: if foo == 'blah': do_blah_thing()
    E701: else: do_non_blah_thing()
    E701: try: something()
    E701: finally: cleanup()
    E701: if foo == 'blah': one(); two(); three()
    E702: do_one(); do_two(); do_three()
    E703: do_four();  # useless semicolon
    E704: def f(x): return 2*x
    E731: f = lambda x: 2*x

    Blank line contains whitespace
    Open

                
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Line too long (85 > 79 characters)
    Open

            super(ALEApproximateModel, self).likelihood(outcomes, modelparams, expparams)
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Blank line contains whitespace
    Open

        
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Line too long (84 > 79 characters)
    Open

                raise ValueError("Adaptive hedging (adapt_hedge) must be non-negative.")
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Blank line contains whitespace
    Open

            
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Line too long (83 > 79 characters)
    Open

                raise ValueError("Estimator hedging (est_hedge) must be non-negative.")
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Blank line contains whitespace
    Open

                
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    No newline at end of file
    Open

    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing blank lines are superfluous.

    Okay: spam(1)
    W391: spam(1)\n
    
    However the last line should end with a new line (warning W292).

    Expected 2 blank lines, found 1
    Open

    class ALEApproximateModel(DerivedModel):
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Separate top-level function and class definitions with two blank lines.

    Method definitions inside a class are separated by a single blank
    line.
    
    Extra blank lines may be used (sparingly) to separate groups of
    related functions.  Blank lines may be omitted between a bunch of
    related one-liners (e.g. a set of dummy implementations).
    
    Use blank lines in functions, sparingly, to indicate logical
    sections.
    
    Okay: def a():\n    pass\n\n\ndef b():\n    pass
    Okay: def a():\n    pass\n\n\nasync def b():\n    pass
    Okay: def a():\n    pass\n\n\n# Foo\n# Bar\n\ndef b():\n    pass
    Okay: default = 1\nfoo = 1
    Okay: classify = 1\nfoo = 1
    
    E301: class Foo:\n    b = 0\n    def bar():\n        pass
    E302: def a():\n    pass\n\ndef b(n):\n    pass
    E302: def a():\n    pass\n\nasync def b(n):\n    pass
    E303: def a():\n    pass\n\n\n\ndef b(n):\n    pass
    E303: def a():\n\n\n\n    pass
    E304: @decorator\n\ndef a():\n    pass
    E305: def a():\n    pass\na()
    E306: def a():\n    def b():\n        pass\n    def c():\n        pass

    Blank line contains whitespace
    Open

            
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Trailing whitespace
    Open

            # problem easier. As such, we will rely on the static method 
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Blank line contains whitespace
    Open

    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Blank line contains whitespace
    Open

        
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Trailing whitespace is superfluous.

    The warning returned varies on whether the line itself is blank,
    for easier filtering for those who want to indent their blank lines.
    
    Okay: spam(1)\n#
    W291: spam(1) \n#
    W293: class Foo(object):\n    \n    bang = 12

    Line too long (82 > 79 characters)
    Open

                n += np.sum(sim_data, axis=0) # Sum over the outcomes axis to find the
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

    Line too long (107 > 79 characters)
    Open

            return FiniteOutcomeModel.pr0_to_likelihood_array(outcomes, 1 - binom_est_p(n, N, self._est_hedge))
    Severity: Minor
    Found in src/qinfer/ale.py by pep8

    Limit all lines to a maximum of 79 characters.

    There are still many devices around that are limited to 80 character
    lines; plus, limiting windows to 80 characters makes it possible to
    have several windows side-by-side.  The default wrapping on such
    devices looks ugly.  Therefore, please limit all lines to a maximum
    of 79 characters. For flowing long blocks of text (docstrings or
    comments), limiting the length to 72 characters is recommended.
    
    Reports error E501.

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