def test_invalid_pagination(self):
index = pd.Index(['sample1', 'sample2', 'sample3'], name='id')
values = ['1.0', '2.0', '3.0']
md = qiime2.Metadata(pd.DataFrame({'value': values}, index=index))
with tempfile.TemporaryDirectory() as output_dir:
with self.assertRaisesRegex(ValueError, 'less than one'):
tabulate(output_dir, md, -1)
def test_pagination(self):
index = pd.Index(['sample1', 'sample2', 'sample3'], name='id')
values = ['1.0', '2.0', '3.0']
md = qiime2.Metadata(pd.DataFrame({'value': values}, index=index))
with tempfile.TemporaryDirectory() as output_dir:
tabulate(output_dir, md, page_size=2)
index_fp = os.path.join(output_dir, 'index.html')
self.assertTrue(os.path.exists(index_fp))
viz = open(index_fp).read()
self.assertTrue('pageLength: 2' in viz)
def test_multiple_dtypes(self):
index = pd.Index(['sample1', 'sample2', 'sample3'], name='id')
data = [[1.0, 'lorem'], [2.0, 'ipsum'], [3.0, 'emrakul']]
md = qiime2.Metadata(
pd.DataFrame(data, index=index, columns=['foo', 'bar']))
with tempfile.TemporaryDirectory() as output_dir:
tabulate(output_dir, md)
index_fp = os.path.join(output_dir, 'index.html')
self.assertTrue(os.path.exists(index_fp))
viz = open(index_fp).read()
self.assertTrue('pageLength: 100' in viz)
self.assertTrue('"columns":["id","foo","bar"]' in viz)
self.assertTrue(all(i in viz for i in index))
self.assertTrue(all(str(v) in viz for row in data for v in row))
def test_valid_metadata(self):
index = pd.Index(['sample1', 'sample2', 'sample3'], name='id')
data = ['1.0', '2.0', '3.0']
md = qiime2.Metadata(
pd.DataFrame({'foo': data}, index=index, dtype=object))
with tempfile.TemporaryDirectory() as output_dir:
tabulate(output_dir, md)
index_fp = os.path.join(output_dir, 'index.html')
self.assertTrue(os.path.exists(index_fp))
viz = open(index_fp).read()
self.assertTrue('pageLength: 100' in viz)
self.assertTrue('"columns":["id","foo"]' in viz)
self.assertTrue(all(i in viz for i in index))
self.assertTrue(all(val in viz for val in data))
def test_single_quotes(self):
index = pd.Index(['sample1', 'sample2', 'sample3'], name='id')
data = ['\'1.0\'', '\'2.0\'', '\'3.0\'']
md = qiime2.Metadata(
pd.DataFrame({'foo': data}, index=index, dtype=object))
with tempfile.TemporaryDirectory() as output_dir:
tabulate(output_dir, md)
index_fp = os.path.join(output_dir, 'index.html')
self.assertTrue(os.path.exists(index_fp))
viz = open(index_fp).read()
self.assertTrue('pageLength: 100' in viz)
self.assertTrue('"columns":["id","foo"]' in viz)
self.assertTrue(all(i in viz for i in index))
unicodified = [
r'\u00271.0\u0027', r'\u00272.0\u0027', r'\u00273.0\u0027'
]
self.assertTrue(all(val in viz for val in unicodified))
def test_valid_metadata_many_columns(self):
index = pd.Index(['sample1', 'sample2', 'sample3'], name='id')
data = [['1.0', 'lorem', 'peanut'], ['2.0', 'ipsum', 'the'],
['3.0', 'emrakul', 'dog']]
md = qiime2.Metadata(
pd.DataFrame(data,
index=index,
dtype=object,
columns=['foo', 'bar', 'baz']))
with tempfile.TemporaryDirectory() as output_dir:
tabulate(output_dir, md)
index_fp = os.path.join(output_dir, 'index.html')
self.assertTrue(os.path.exists(index_fp))
viz = open(index_fp).read()
self.assertTrue('pageLength: 100' in viz)
self.assertTrue('"columns":["id","foo","bar","baz"]' in viz)
self.assertTrue(all(i in viz for i in index))
self.assertTrue(all(v in viz for row in data for v in row))
