def testEnd(self):
"""
The end method must return the feature start.
"""
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location)
feature = _Feature(seqFeature, identity)
self.assertEqual(200, feature.end())
def testNotSubfeatureByDefault(self):
"""
A feature must not be a subfeature by default.
"""
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location)
feature = _Feature(seqFeature, identity)
self.assertFalse(feature.subfeature)
def testLegendLabel(self):
"""
The legendLabel method must return a description.
"""
location = FeatureLocation(100, 200)
qualifiers = {"note": ["Capsid protein"]}
seqFeature = SeqFeature(location=location, type="site", qualifiers=qualifiers)
feature = _Feature(seqFeature, identity)
self.assertEqual("100-200 site. note: Capsid protein", feature.legendLabel())
def testSetColor(self):
"""
The setColor method must set the 'color' attribute on the feature.
"""
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location)
feature = _Feature(seqFeature, identity)
feature.setColor("red")
self.assertEqual("red", feature.color)
def testSubfeature(self):
"""
A feature must be a subfeature if it is passed C{subfeature} = C{True}
on initialization.
"""
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location)
feature = _Feature(seqFeature, identity, subfeature=True)
self.assertTrue(feature.subfeature)
def testLegendLabelNoQualifiers(self):
"""
The legendLabel method must return a correct description for a feature
that has no qualifiers.
"""
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location, type="site")
feature = _Feature(seqFeature, identity)
self.assertEqual("100-200 site.", feature.legendLabel())
def testEndWithOffsetAdjuster(self):
"""
The end method must return the feature end, as adjusted by the
passed offset adjuster.
"""
adjuster = lambda x: 3 * x
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location)
feature = _Feature(seqFeature, adjuster)
self.assertEqual(600, feature.end())
def testStartWithOffsetAdjuster(self):
"""
The start method must return the feature start, as adjusted by the
passed offset adjuster.
"""
adjuster = lambda x: 3 * x
location = FeatureLocation(100, 200)
seqFeature = SeqFeature(location=location)
feature = _Feature(seqFeature, adjuster)
self.assertEqual(300, feature.start())
def testLegendLabelTruncatesValues(self):
"""
The legendLabel method must return a description with qualifier
values truncated to length 30 (including the trailing ...).
"""
location = FeatureLocation(100, 200)
qualifiers = {"note": ["x" * 40]}
seqFeature = SeqFeature(location=location, type="site", qualifiers=qualifiers)
feature = _Feature(seqFeature, identity)
xs = "x" * 27 + "..."
self.assertEqual("100-200 site. note: %s" % xs, feature.legendLabel())
