本文整理汇总了Python中puzzle.plugins.GeminiPlugin.variant方法的典型用法代码示例。如果您正苦于以下问题：Python GeminiPlugin.variant方法的具体用法？Python GeminiPlugin.variant怎么用？Python GeminiPlugin.variant使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类puzzle.plugins.GeminiPlugin的用法示例。
在下文中一共展示了GeminiPlugin.variant方法的3个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Python代码示例。
示例1: test_variant
# 需要导入模块: from puzzle.plugins import GeminiPlugin [as 别名]
# 或者: from puzzle.plugins.GeminiPlugin import variant [as 别名]
def test_variant(gemini_path):
"""Test to get one variant"""
adapter = GeminiPlugin(db=gemini_path)
variant = adapter.variant(
case_id='643594',
variant_id=4
)
assert variant['CHROM'] == '6'
assert variant['POS'] == '32487163'
assert type(variant['genes']) == type([])示例2: test_variant
# 需要导入模块: from puzzle.plugins import GeminiPlugin [as 别名]
# 或者: from puzzle.plugins.GeminiPlugin import variant [as 别名]
def test_variant(gemini_case_obj):
"""Test to get one variant"""
plugin = GeminiPlugin()
plugin.add_case(gemini_case_obj)
variant = plugin.variant(
case_id='643594',
variant_id=4
)
assert variant['CHROM'] == '6'
assert variant['POS'] == '32487163'
assert type(variant['genes']) == type([])示例3: TestGeminiAdapter
# 需要导入模块: from puzzle.plugins import GeminiPlugin [as 别名]
# 或者: from puzzle.plugins.GeminiPlugin import variant [as 别名]
class TestGeminiAdapter(object):
"""Setup and test a gemini adapter"""
def setup(self):
"""docstring for setup"""
self.adapter = GeminiPlugin(GEMINI_DB)
def test_gemini_individuals(self):
"""docstring for test_gemini_individuals"""
ind_ids = set([individual['ind_id']
for individual in self.adapter.individuals])
assert ind_ids == set(['NA12877', 'NA12878', 'NA12882'])
def test_gemini_cases(self):
"""docstring for test_gemini_individuals"""
cases = set([case['name']
for case in self.adapter.cases()])
assert cases == set(['643594'])
def test_get_variants(self):
"""Test to get some variants from the gemini adapter"""
variants = []
for variant in self.adapter.variants('643594', count=5):
variants.append(variant)
assert len(variants) == 5
def test_get_variant(self):
"""Test to get one variant"""
variant = self.adapter.variant(
case_id='643594',
variant_id=4
)
assert variant['CHROM'] == '6'
assert variant['POS'] == '32487163'