Commit ⋅ hdmf-dev/hdmf

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src/hdmf/backends/hdf5/h5tools.py changed.

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85.41% ø ø

src/hdmf/build/builders.py changed.

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tests/unit/test_io_hdf5_h5tools.py has changed.

@@ -310,6 +310,7 @@

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                    # get path of link (the key used for tracking what's been built)
                    target_path = link_type.path
                    builder_name = os.path.basename(target_path)
                    parent_loc = os.path.dirname(target_path)
                    # get builder if already read, else build it
                    builder = self.__get_built(sub_h5obj.file.filename, target_path)
                    if builder is None:

@@ -319,6 +320,7 @@

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                        else:
                            builder = self.__read_group(sub_h5obj, builder_name, ignore=ignore)
                        self.__set_built(sub_h5obj.file.filename, target_path, builder)
                    builder.location = parent_loc
                    link_builder = LinkBuilder(builder, k, source=h5obj.file.filename)
                    link_builder.written = True
                    kwargs['links'][builder_name] = link_builder

@@ -446,6 +448,8 @@

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            self.write_group(self.__file, gbldr)
        for name, dbldr in f_builder.datasets.items():
            self.write_dataset(self.__file, dbldr, link_data)
        for name, lbldr in f_builder.links.items():
            self.write_link(self.__file, lbldr)
        self.set_attributes(self.__file, f_builder.attributes)
        self.__add_refs()


@@ -632,6 +636,8 @@

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            target_filename = os.path.abspath(target_builder.source)
            parent_filename = os.path.abspath(parent.file.filename)
            relative_path = os.path.relpath(target_filename, os.path.dirname(parent_filename))
            if target_builder.location is not None:
                path = target_builder.location + path
            link_obj = ExternalLink(relative_path, path)
        else:
            msg = 'cannot create external link to %s' % path

@@ -104,6 +104,18 @@

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        super(BaseBuilder, self).__setitem__(BaseBuilder.__attribute, dict())
        for name, val in attributes.items():
            self.set_attribute(name, val)
        self.__location = None

    @property
    def location(self):
        """
        The location of this Builder in its source
        """
        return self.__location

    @location.setter
    def location(self, val):
        self.__location = val

    @property
    def attributes(self):

Files		•	•	•	Coverage
src/hdmf	4,960	3,408	360	1,192	68.71%
Project Totals (24 files)	4,960	3,408	360	1,192	68.71%

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coverage:
  status:
    project:
      default:
        # Don't allow overall project coverage to be dropped more than
        # 2%
        threshold: 2
    patch:
      default:
        # 75% of the changed code must be covered by tests
        threshold: 25
        only_pulls: true

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The top section represents the entire project. Proceeding with folders and finally individual files. The size and color of each slice is representing the number of statements and the coverage, respectively.

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310	310		# get path of link (the key used for tracking what's been built)
311	311		target_path = link_type.path
312	312		builder_name = os.path.basename(target_path)
	313	+	parent_loc = os.path.dirname(target_path)
313	314		# get builder if already read, else build it
314	315		builder = self.__get_built(sub_h5obj.file.filename, target_path)
315	316		if builder is None:

446	448		self.write_group(self.__file, gbldr)
447	449		for name, dbldr in f_builder.datasets.items():
448	450		self.write_dataset(self.__file, dbldr, link_data)
	451	+	for name, lbldr in f_builder.links.items():
	452	+	self.write_link(self.__file, lbldr)
449	453		self.set_attributes(self.__file, f_builder.attributes)
450	454		self.__add_refs()
451	455

104	104		super(BaseBuilder, self).__setitem__(BaseBuilder.__attribute, dict())
105	105		for name, val in attributes.items():
106	106		self.set_attribute(name, val)
	107	+	self.__location = None
	108	+
	109	+	@property
	110	+	def location(self):
	111	+	"""
	112	+	The location of this Builder in its source
	113	+	"""
	114	+	return self.__location
	115	+
	116	+	@location.setter
	117	+	def location(self, val):
	118	+	self.__location = val
107	119
108	120		@property
109	121		def attributes(self):

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319	320		else:
320	321		builder = self.__read_group(sub_h5obj, builder_name, ignore=ignore)
321	322		self.__set_built(sub_h5obj.file.filename, target_path, builder)
	323	+	builder.location = parent_loc
322	324		link_builder = LinkBuilder(builder, k, source=h5obj.file.filename)
323	325		link_builder.written = True
324	326		kwargs['links'][builder_name] = link_builder

632	636		target_filename = os.path.abspath(target_builder.source)
633	637		parent_filename = os.path.abspath(parent.file.filename)
634	638		relative_path = os.path.relpath(target_filename, os.path.dirname(parent_filename))
	639	+	if target_builder.location is not None:
	640	+	path = target_builder.location + path
635	641		link_obj = ExternalLink(relative_path, path)
636	642		else:
637	643		msg = 'cannot create external link to %s' % path

1	coverage:
2	status:
3	project:
4	default:
5	# Don't allow overall project coverage to be dropped more than
6	# 2%
7	threshold: 2
8	patch:
9	default:
10	# 75% of the changed code must be covered by tests
11	threshold: 25
12	only_pulls: true

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