NiftiFile.attach() - Code Metrics - Inspection of "Snapshots and views of images" - ilogue/niprov - Measure and Improve Code Quality continuously with Scrutinizer

Completed

Pull Request — master (#136)

by Jasper

created 2016-05-20 01:43 UTC

NiftiFile.attach() A

↳ Parent: NiftiFile

Complexity

Conditions

Size

Total Lines

Duplication

Lines	0
Ratio	0 %

Importance

Changes	1
Bugs	0	Features	0

Metric	Value
cc	1
c	1
b	0
f	0
dl	0
loc	15
rs	9.4285

from datetime import datetime
from niprov.basefile import BaseFile


class NiftiFile(BaseFile):

    def __init__(self, location, **kwargs):
        super(NiftiFile, self).__init__(location, **kwargs)
        self.libs = self.dependencies.getLibraries()
        self.polaroid = self.dependencies.getPolaroid()
        self.pictureCache = self.dependencies.getPictureCache()

    def attach(self, form='json'):
        """
        Attach the current provenance to the file by injecting it as a 
        json-encoded extension to the nifti header.

        Args:
            form (str): Data format in which to serialize provenance. Defaults 
                to 'json'.
        """
        img = self.libs.nibabel.load(self.path)
        provstr = self.getProvenance(form)
        ext = self.libs.nibabel.nifti1.Nifti1Extension('comment', provstr)
        hdr = img.get_header()
        hdr.extensions.append(ext)
        img.to_filename(self.path)

    def inspect(self):
        provenance = super(NiftiFile, self).inspect()
        img = self.libs.nibabel.load(self.path)
        self.polaroid.saveSnapshot(img.get_data(), to=self.pictureCache)
        return provenance


1			from datetime import datetime
2			from niprov.basefile import BaseFile
3
4
5			class NiftiFile(BaseFile):
6
7			def __init__(self, location, **kwargs):
8			super(NiftiFile, self).__init__(location, **kwargs)
9			self.libs = self.dependencies.getLibraries()
10			self.polaroid = self.dependencies.getPolaroid()
11			self.pictureCache = self.dependencies.getPictureCache()
12
13			def attach(self, form='json'):
14			"""
15			Attach the current provenance to the file by injecting it as a
16			json-encoded extension to the nifti header.
17
18			Args:
19			form (str): Data format in which to serialize provenance. Defaults
20			to 'json'.
21			"""
22			img = self.libs.nibabel.load(self.path)
23			provstr = self.getProvenance(form)
24			ext = self.libs.nibabel.nifti1.Nifti1Extension('comment', provstr)
25			hdr = img.get_header()
26			hdr.extensions.append(ext)
27			img.to_filename(self.path)
28
29			def inspect(self):
30			provenance = super(NiftiFile, self).inspect()
31			img = self.libs.nibabel.load(self.path)
32			self.polaroid.saveSnapshot(img.get_data(), to=self.pictureCache)
33			return provenance
34

ilogue / niprov

Pull Request — master (#136)

NiftiFile.attach() A

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