本文整理匯總了Python中process.sequence.AlignmentList.filter_by_taxa方法的典型用法代碼示例。如果您正苦於以下問題：Python AlignmentList.filter_by_taxa方法的具體用法？Python AlignmentList.filter_by_taxa怎麽用？Python AlignmentList.filter_by_taxa使用的例子？那麽, 這裏精選的方法代碼示例或許可以為您提供幫助。您也可以進一步了解該方法所在類process.sequence.AlignmentList的用法示例。
在下文中一共展示了AlignmentList.filter_by_taxa方法的1個代碼示例，這些例子默認根據受歡迎程度排序。您可以為喜歡或者感覺有用的代碼點讚，您的評價將有助於係統推薦出更棒的Python代碼示例。
示例1: AlignmentTaxaFilters
# 需要導入模塊: from process.sequence import AlignmentList [as 別名]
# 或者: from process.sequence.AlignmentList import filter_by_taxa [as 別名]
class AlignmentTaxaFilters(unittest.TestCase):
def setUp(self):
if not os.path.exists(temp_dir):
os.makedirs(temp_dir)
self.aln_obj = AlignmentList([], sql_db=sql_db)
def tearDown(self):
self.aln_obj.clear_alignments()
self.aln_obj.con.close()
shutil.rmtree(temp_dir)
def test_filter_min_taxa(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_min_taxa(50)
self.assertEqual(len(self.aln_obj.alignments), 5)
def test_filter_min_taxa_max(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_min_taxa(100)
self.assertEqual(len(self.aln_obj.alignments), 1)
def test_filter_min_taxa_min(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_min_taxa(0)
self.assertEqual(len(self.aln_obj.alignments), 7)
def test_filter_by_taxa_include(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_by_taxa(["spa", "spb", "spc", "spd"], "Contain")
self.assertEqual(len(self.aln_obj.alignments), 2)
def test_filter_by_taxa_exclude(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_by_taxa(["spa", "spb", "spc", "spd"], "Exclude")
self.assertEqual(len(self.aln_obj.alignments), 5)
def test_filter_by_taxa_all(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_by_taxa(["no_taxa"], "Contain")
self.assertEqual(len(self.aln_obj.alignments), 0)
def test_filter_by_taxa_from_file(self):
self.aln_obj.add_alignment_files(dna_data_fas)
self.aln_obj.filter_by_taxa("trifusion/tests/data/filter_taxa.txt",
"Contain")
self.assertEqual(len(self.aln_obj.alignments), 2)