Commit ⋅ nipy/nipype

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nipype/interfaces/tests/test_io.py has changed.

nipype/interfaces/base/tests/test_core.py has changed.

@@ -31,7 +31,7 @@

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from ...external.due import due

from .traits_extension import traits, isdefined
from .traits_extension import traits, isdefined, Undefined
from .specs import (
    BaseInterfaceInputSpec,
    CommandLineInputSpec,

@@ -180,7 +180,16 @@

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        if not self.input_spec:
            raise Exception("No input_spec in class: %s" % self.__class__.__name__)

        self.inputs = self.input_spec(**inputs)
        # Create input spec, disable any defaults that are unavailable due to
        # version, and then apply the inputs that were passed.
        self.inputs = self.input_spec()
        unavailable_traits = self._check_version_requirements(
            self.inputs, permissive=True
        )
        if unavailable_traits:
            self.inputs.trait_set(**{k: Undefined for k in unavailable_traits})
        self.inputs.trait_set(**inputs)

        self.ignore_exception = ignore_exception

        if resource_monitor is not None:

@@ -264,8 +273,12 @@

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        ):
            self._check_requires(spec, name, getattr(self.inputs, name))

    def _check_version_requirements(self, trait_object, raise_exception=True):
    def _check_version_requirements(self, trait_object, permissive=False):
        """ Raises an exception on version mismatch

        Set the ``permissive`` attribute to True to suppress warnings and exceptions.
        This is currently only used in __init__ to silently identify unavailable
        traits.
        """
        unavailable_traits = []
        # check minimum version

@@ -283,7 +296,8 @@

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                        f"Nipype cannot validate the package version {version!r} for "
                        f"{self.__class__.__name__}. Trait {name} requires version >={min_ver}."
                    )
                    iflogger.warning(f"{msg}. Please verify validity.")
                    if not permissive:
                        iflogger.warning(f"{msg}. Please verify validity.")
                    if config.getboolean("execution", "stop_on_unknown_version"):
                        raise ValueError(msg) from err
                    continue

@@ -291,7 +305,7 @@

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                    unavailable_traits.append(name)
                    if not isdefined(getattr(trait_object, name)):
                        continue
                    if raise_exception:
                    if not permissive:
                        raise Exception(
                            "Trait %s (%s) (version %s < required %s)"
                            % (name, self.__class__.__name__, version, min_ver)

@@ -311,7 +325,8 @@

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                        f"Nipype cannot validate the package version {version!r} for "
                        f"{self.__class__.__name__}. Trait {name} requires version <={max_ver}."
                    )
                    iflogger.warning(f"{msg}. Please verify validity.")
                    if not permissive:
                        iflogger.warning(f"{msg}. Please verify validity.")
                    if config.getboolean("execution", "stop_on_unknown_version"):
                        raise ValueError(msg) from err
                    continue

@@ -319,7 +334,7 @@

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                    unavailable_traits.append(name)
                    if not isdefined(getattr(trait_object, name)):
                        continue
                    if raise_exception:
                    if not permissive:
                        raise Exception(
                            "Trait %s (%s) (version %s > required %s)"
                            % (name, self.__class__.__name__, version, max_ver)

Files		•	•	•	Coverage
nipype	39,837	25,773	1,090	12,974	64.70%
Project Totals (302 files)	39,837	25,773	1,090	12,974	64.70%

CIRCLE_JOB=test_pytest

unittests

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coverage:
  range: "0...100"
  status:
    patch:
      default:
        target: 0
        threshold: 100
    project:
      default:
        target: 0
        threshold: 100
      patch:
        target: 0
        threshold: 100
      unittests:
        target: 0
        threshold: 100
        flags:
          - "unittests"
      smoketests:
        target: 0
        threshold: 100
        flags:
          - "smoketests"
  ignore:          # files and folders that will be removed during processing
    - "nipype/external"
    - "tools"
    - "doc"
    - "**/tests"
    - "examples"

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180	180		if not self.input_spec:
181	181		raise Exception("No input_spec in class: %s" % self.__class__.__name__)
182	182
183		-	self.inputs = self.input_spec(**inputs)
	183	+	# Create input spec, disable any defaults that are unavailable due to
	184	+	# version, and then apply the inputs that were passed.
	185	+	self.inputs = self.input_spec()
	186	+	unavailable_traits = self._check_version_requirements(
	187	+	self.inputs, permissive=True
	188	+	)
	189	+	if unavailable_traits:
	190	+	self.inputs.trait_set(**{k: Undefined for k in unavailable_traits})
	191	+	self.inputs.trait_set(**inputs)
	192	+
184	193		self.ignore_exception = ignore_exception
185	194
186	195		if resource_monitor is not None:

264	273		):
265	274		self._check_requires(spec, name, getattr(self.inputs, name))
266	275
267		-	def _check_version_requirements(self, trait_object, raise_exception=True):
	276	+	def _check_version_requirements(self, trait_object, permissive=False):
268	277		""" Raises an exception on version mismatch
	278	+
	279	+	Set the ``permissive`` attribute to True to suppress warnings and exceptions.
	280	+	This is currently only used in __init__ to silently identify unavailable
	281	+	traits.
269	282		"""
270	283		unavailable_traits = []
271	284		# check minimum version

283	296		f"Nipype cannot validate the package version {version!r} for "
284	297		f"{self.__class__.__name__}. Trait {name} requires version >={min_ver}."
285	298		)
286		-	iflogger.warning(f"{msg}. Please verify validity.")
	299	+	if not permissive:
	300	+	iflogger.warning(f"{msg}. Please verify validity.")
287	301		if config.getboolean("execution", "stop_on_unknown_version"):
288	302		raise ValueError(msg) from err
289	303		continue

311	325		f"Nipype cannot validate the package version {version!r} for "
312	326		f"{self.__class__.__name__}. Trait {name} requires version <={max_ver}."
313	327		)
314		-	iflogger.warning(f"{msg}. Please verify validity.")
	328	+	if not permissive:
	329	+	iflogger.warning(f"{msg}. Please verify validity.")
315	330		if config.getboolean("execution", "stop_on_unknown_version"):
316	331		raise ValueError(msg) from err
317	332		continue

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31	31
32	32		from ...external.due import due
33	33
34		-	from .traits_extension import traits, isdefined
	34	+	from .traits_extension import traits, isdefined, Undefined
35	35		from .specs import (
36	36		BaseInterfaceInputSpec,
37	37		CommandLineInputSpec,

291	305		unavailable_traits.append(name)
292	306		if not isdefined(getattr(trait_object, name)):
293	307		continue
294		-	if raise_exception:
	308	+	if not permissive:
295	309		raise Exception(
296	310		"Trait %s (%s) (version %s < required %s)"
297	311		% (name, self.__class__.__name__, version, min_ver)

1	coverage:
2	range: "0...100"
3	status:
4	patch:
5	default:
6	target: 0
7	threshold: 100
8	project:
9	default:
10	target: 0
11	threshold: 100
12	patch:
13	target: 0
14	threshold: 100
15	unittests:
16	target: 0
17	threshold: 100
18	flags:
19	- "unittests"
20	smoketests:
21	target: 0
22	threshold: 100
23	flags:
24	- "smoketests"
25	ignore: # files and folders that will be removed during processing
26	- "nipype/external"
27	- "tools"
28	- "doc"
29	- "**/tests"
30	- "examples"