def testExtra(self):
tf = TrackFormat.createInstanceFromPrefixList(["start", "a", "b", "c"], "float64", 1, "float64", 1)
self.assertTrue(tf.hasExtra(specificExtra="a"))
self.assertFalse(tf.hasExtra(specificExtra="d"))
self.assertEqual(["a", "b", "c"], tf.getExtraNames())
tfq = TrackFormatReq(interval=False, extra=["a", "b"])
self.assertFalse(tfq.isCompatibleWith(tf))
def _assertConvertSegmentToPoint(self, targetStarts, sourceTv, converterCls):
pointFormat = TrackFormatReq(interval=False, dense=False)
self.assertTrue(converterCls.canHandle(sourceTv.trackFormat, pointFormat))
targetTv = converterCls.convert(sourceTv)
self.assertTrue(pointFormat.isCompatibleWith(targetTv.trackFormat))
self.assertEqual(targetStarts, [el.start() for el in targetTv])
for el in targetTv:
self.assertEqual(el.start() + 1, el.end())
def testWeightTypes(self):
tf = TrackFormat.createInstanceFromPrefixList(["id", "edges", "weights"], "float64", 1, "S8", 3)
self.assertTrue(tf.isWeighted(specificWeightType="category_vector"))
self.assertFalse(tf.isWeighted(specificWeightType="number"))
self.assertEqual("Vector of categories", tf.getWeightTypeName())
self.assertEqual("Linked base pairs", tf.getFormatName())
tfq = TrackFormatReq(linked=True, weights="number")
self.assertFalse(tfq.isCompatibleWith(tf))
def testValTypes(self):
tf = TrackFormat.createInstanceFromPrefixList(["start", "val"], "float128", 2, "float64", 1)
self.assertTrue(tf.isValued(specificValType="mean_sd"))
self.assertFalse(tf.isValued(specificValType="number"))
self.assertEqual("Mean and std.dev.", tf.getValTypeName())
self.assertEqual("Valued points", tf.getFormatName())
tfq = TrackFormatReq(interval=False, val="tc")
self.assertFalse(tfq.isCompatibleWith(tf))
def testExtra(self):
tf = TrackFormat.createInstanceFromPrefixList(['start', 'a', 'b', 'c'],
'float64', 1, 'float64',
1)
self.assertTrue(tf.hasExtra(specificExtra='a'))
self.assertFalse(tf.hasExtra(specificExtra='d'))
self.assertEqual(['a', 'b', 'c'], tf.getExtraNames())
tfq = TrackFormatReq(interval=False, extra=['a', 'b'])
self.assertFalse(tfq.isCompatibleWith(tf))
def _assertConvertSegmentToPoint(self, targetStarts, sourceTv,
converterCls):
pointFormat = TrackFormatReq(interval=False, dense=False)
self.assertTrue(
converterCls.canHandle(sourceTv.trackFormat, pointFormat))
targetTv = converterCls.convert(sourceTv)
self.assertTrue(pointFormat.isCompatibleWith(targetTv.trackFormat))
self.assertEqual(targetStarts, [el.start() for el in targetTv])
for el in targetTv:
self.assertEqual(el.start() + 1, el.end())
def testWeightTypes(self):
tf = TrackFormat.createInstanceFromPrefixList(
['id', 'edges', 'weights'], 'float64', 1, 'S8', 3)
self.assertTrue(tf.isWeighted(specificWeightType='category_vector'))
self.assertFalse(tf.isWeighted(specificWeightType='number'))
self.assertEqual('Vector of categories', tf.getWeightTypeName())
self.assertEqual('Linked base pairs', tf.getFormatName())
tfq = TrackFormatReq(linked=True, weights='number')
self.assertFalse(tfq.isCompatibleWith(tf))
def testValTypes(self):
tf = TrackFormat.createInstanceFromPrefixList(['start', 'val'],
'float128', 2, 'float64',
1)
self.assertTrue(tf.isValued(specificValType='mean_sd'))
self.assertFalse(tf.isValued(specificValType='number'))
self.assertEqual('Mean and std.dev.', tf.getValTypeName())
self.assertEqual('Valued points', tf.getFormatName())
tfq = TrackFormatReq(interval=False, val='tc')
self.assertFalse(tfq.isCompatibleWith(tf))
