def __str__(self):
"""Return a string representation of the ordination results.
String representation lists ordination results attributes and indicates
whether or not they are present. If an attribute is present, its
dimensions are listed. A truncated list of species and site IDs are
included (if they are present).
Returns
-------
str
String representation of the ordination results.
"""
lines = ['Ordination results:']
attrs = [(self.eigvals, 'Eigvals'),
(self.proportion_explained, 'Proportion explained'),
(self.species, 'Species'),
(self.site, 'Site'),
(self.biplot, 'Biplot'),
(self.site_constraints, 'Site constraints')]
for attr, attr_label in attrs:
def formatter(e):
return 'x'.join(['%d' % s for s in e.shape])
lines.append(self._format_attribute(attr, attr_label, formatter))
lines.append(self._format_attribute(self.species_ids, 'Species IDs',
lambda e: _pprint_strs(e)))
lines.append(self._format_attribute(self.site_ids, 'Site IDs',
lambda e: _pprint_strs(e)))
return '\n'.join(lines)
def __str__(self):
"""Return a string representation of the ordination results.
String representation lists ordination results attributes and indicates
whether or not they are present. If an attribute is present, its
dimensions are listed. A truncated list of species and site IDs are
included (if they are present).
Returns
-------
str
String representation of the ordination results.
.. shownumpydoc
"""
lines = ['Ordination results:']
attrs = [(self.eigvals, 'Eigvals'),
(self.proportion_explained, 'Proportion explained'),
(self.species, 'Species'), (self.site, 'Site'),
(self.biplot, 'Biplot'),
(self.site_constraints, 'Site constraints')]
for attr, attr_label in attrs:
formatter = lambda e: 'x'.join(['%d' % s for s in e.shape])
lines.append(self._format_attribute(attr, attr_label, formatter))
lines.append(
self._format_attribute(self.species_ids, 'Species IDs',
lambda e: _pprint_strs(e)))
lines.append(
self._format_attribute(self.site_ids, 'Site IDs',
lambda e: _pprint_strs(e)))
return '\n'.join(lines)
def test_no_truncation(self):
exp = "'a'"
obs = _pprint_strs(['a'], max_chars=3)
self.assertEqual(obs, exp)
exp = "'a', 'b', 'c'"
obs = _pprint_strs(['a', 'b', 'c'])
self.assertEqual(obs, exp)
exp = "'a', 'b', 'c'"
obs = _pprint_strs(['a', 'b', 'c'], max_chars=13)
self.assertEqual(obs, exp)
def test_no_truncation(self):
exp = "'a'"
obs = _pprint_strs(['a'], max_chars=3)
self.assertEqual(obs, exp)
exp = "'a', 'b', 'c'"
obs = _pprint_strs(['a', 'b', 'c'])
self.assertEqual(obs, exp)
exp = "'a', 'b', 'c'"
obs = _pprint_strs(['a', 'b', 'c'], max_chars=13)
self.assertEqual(obs, exp)
def test_non_default_delimiter_and_suffix(self):
exp = "'abc','defg',...."
obs = _pprint_strs(['abc', 'defg', 'hi', 'jklmno'],
max_chars=14,
delimiter=',',
suffix='....')
self.assertEqual(obs, exp)
def test_truncation(self):
# truncation between items (on comma)
exp = "'a', ..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=4)
self.assertEqual(obs, exp)
# truncation between items (on space)
exp = "'a', ..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=5)
self.assertEqual(obs, exp)
# truncation on item
exp = "'a', ..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=6)
self.assertEqual(obs, exp)
# truncation (no items)
exp = "..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=2)
self.assertEqual(obs, exp)
def test_truncation(self):
# truncation between items (on comma)
exp = "'a', ..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=4)
self.assertEqual(obs, exp)
# truncation between items (on space)
exp = "'a', ..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=5)
self.assertEqual(obs, exp)
# truncation on item
exp = "'a', ..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=6)
self.assertEqual(obs, exp)
# truncation (no items)
exp = "..."
obs = _pprint_strs(['a', 'b', 'c'], max_chars=2)
self.assertEqual(obs, exp)
def __str__(self):
"""Return a string representation of the ordination results.
String representation lists ordination results attributes and indicates
whether or not they are present. If an attribute is present, its
dimensions are listed. A truncated list of features and sample IDs are
included (if they are present).
Returns
-------
str
String representation of the ordination results.
.. shownumpydoc
"""
lines = ['Ordination results:']
method = '%s (%s)' % (self.long_method_name, self.short_method_name)
lines.append(self._format_attribute(method, 'Method', str))
attrs = [(self.eigvals, 'Eigvals'),
(self.proportion_explained, 'Proportion explained'),
(self.features, 'Features'),
(self.samples, 'Samples'),
(self.biplot_scores, 'Biplot Scores'),
(self.sample_constraints, 'Sample constraints')]
for attr, attr_label in attrs:
def formatter(e):
return 'x'.join(['%d' % s for s in e.shape])
lines.append(self._format_attribute(attr, attr_label, formatter))
lines.append(self._format_attribute(
self.features, 'Feature IDs',
lambda e: _pprint_strs(e.index.tolist())))
lines.append(self._format_attribute(
self.samples, 'Sample IDs',
lambda e: _pprint_strs(e.index.tolist())))
return '\n'.join(lines)
def __str__(self):
"""Return a string representation of the ordination results.
String representation lists ordination results attributes and indicates
whether or not they are present. If an attribute is present, its
dimensions are listed. A truncated list of features and sample IDs are
included (if they are present).
Returns
-------
str
String representation of the ordination results.
.. shownumpydoc
"""
lines = ["Ordination results:"]
method = "%s (%s)" % (self.long_method_name, self.short_method_name)
lines.append(self._format_attribute(method, "Method", str))
attrs = [
(self.eigvals, "Eigvals"),
(self.proportion_explained, "Proportion explained"),
(self.features, "Features"),
(self.samples, "Samples"),
(self.biplot_scores, "Biplot Scores"),
(self.sample_constraints, "Sample constraints"),
]
for attr, attr_label in attrs:
def formatter(e):
return "x".join(["%d" % s for s in e.shape])
lines.append(self._format_attribute(attr, attr_label, formatter))
lines.append(self._format_attribute(self.features, "Feature IDs", lambda e: _pprint_strs(e.index.tolist())))
lines.append(self._format_attribute(self.samples, "Sample IDs", lambda e: _pprint_strs(e.index.tolist())))
return "\n".join(lines)
def __str__(self):
"""Return a string representation of the dissimilarity matrix.
Summary includes matrix dimensions, a (truncated) list of IDs, and
(truncated) array of dissimilarities.
Returns
-------
str
String representation of the dissimilarity matrix.
"""
return '%dx%d %s matrix\nIDs:\n%s\nData:\n' % (
self.shape[0], self.shape[1], self._matrix_element_name,
_pprint_strs(self.ids)) + str(self.data)
def __str__(self):
"""Return a string representation of the dissimilarity matrix.
Summary includes matrix dimensions, a (truncated) list of IDs, and
(truncated) array of dissimilarities.
Returns
-------
str
String representation of the dissimilarity matrix.
"""
return '%dx%d %s matrix\nIDs:\n%s\nData:\n' % (
self.shape[0], self.shape[1], self._matrix_element_name,
_pprint_strs(self.ids)) + str(self.data)
def test_non_default_delimiter_and_suffix(self):
exp = "'abc','defg',...."
obs = _pprint_strs(['abc', 'defg', 'hi', 'jklmno'], max_chars=14,
delimiter=',', suffix='....')
self.assertEqual(obs, exp)
def test_non_default_delimiter_and_suffix(self):
exp = "'abc','defg',...."
obs = _pprint_strs(["abc", "defg", "hi", "jklmno"], max_chars=14, delimiter=",", suffix="....")
self.assertEqual(obs, exp)