def test_taxon_significance(self):
exp = {
'test': ('FAILED (generate_otu_signifigance_tables_AGP.py: '
'error: The supplied taxonomy file does not exist '
'in the path.): '
'generate_otu_signifigance_tables_AGP.py '
'-i bar.biom -o foo/test -s test -m baz')
}
ids = ['test']
opts = {
'per-sample': {
'results': 'foo'
},
'taxa': {
'notrim': {
'L6': {
'ag-bar-biom': 'bar.biom'
}
}
},
'meta': {
'ag-cleaned-md': 'baz'
},
'sample_type': 'bar'
}
obs = agps.taxon_significance(opts, ids)
self.assertEqual(obs, exp)
def test_taxon_significance(self):
exp = {'test': ('FAILED (generate_otu_signifigance_tables_AGP.py: '
'error: The supplied taxonomy file does not exist '
'in the path.): '
'generate_otu_signifigance_tables_AGP.py '
'-i bar.biom -o foo/test -s test')}
ids = ['test']
opts = {'per-sample-results': 'foo',
'ag-L6-taxa-bar-biom': 'bar.biom',
'sample_type': 'bar'}
obs = agps.taxon_significance(opts, ids)
self.assertEqual(obs, exp)
def test_taxon_significance(self):
exp = {'test': ('FAILED (generate_otu_signifigance_tables_AGP.py: '
'error: The supplied taxonomy file does not exist '
'in the path.): '
'generate_otu_signifigance_tables_AGP.py '
'-i bar.biom -o foo/test -s test -m baz')}
ids = ['test']
opts = {'per-sample': {'results': 'foo'},
'taxa': {'notrim': {'L6': {'ag-bar-biom': 'bar.biom'}}},
'meta': {'ag-cleaned-md': 'baz'},
'sample_type': 'bar'}
obs = agps.taxon_significance(opts, ids)
self.assertEqual(obs, exp)
def test_taxon_significance(self):
exp = {
'test': ('FAILED (generate_otu_signifigance_tables_AGP.py: '
'error: The supplied taxonomy file does not exist '
'in the path.): '
'generate_otu_signifigance_tables_AGP.py '
'-i bar.biom -o foo/test -s test')
}
ids = ['test']
opts = {
'per-sample-results': 'foo',
'ag-L6-taxa-bar-biom': 'bar.biom',
'sample_type': 'bar'
}
obs = agps.taxon_significance(opts, ids)
self.assertEqual(obs, exp)
