How to use biopython - 7 common examples
To help you get started, we’ve selected a few biopython examples, based on popular ways it is used in public projects.
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biotite-dev / biotite / tests / structure / pdbx.py View on Github 
def _test_conversion(self, stack):
for path in self.files:
with self.subTest(id=path[-8:-4]):
pdbx_file = pdbx.PDBxFile()
pdbx_file.read(path)
if stack:
array1 = pdbx.get_structure(pdbx_file)
else:
array1 = pdbx.get_structure(pdbx_file, model=1)
pdbx.set_structure(pdbx_file, array1)
if stack:
array2 = pdbx.get_structure(pdbx_file)
else:
array2 = pdbx.get_structure(pdbx_file, model=1)
self.assertEqual(array1, array2)def _test_conversion(self, stack):
for path in self.files:
with self.subTest(id=path[-8:-4]):
pdbx_file = pdbx.PDBxFile()
pdbx_file.read(path)
if stack:
array1 = pdbx.get_structure(pdbx_file)
else:
array1 = pdbx.get_structure(pdbx_file, model=1)
pdbx.set_structure(pdbx_file, array1)
if stack:
array2 = pdbx.get_structure(pdbx_file)
else:
array2 = pdbx.get_structure(pdbx_file, model=1)
self.assertEqual(array1, array2)def _test_conversion(self, stack):
for path in self.files:
with self.subTest(id=path[-8:-4]):
pdbx_file = pdbx.PDBxFile()
pdbx_file.read(path)
if stack:
array1 = pdbx.get_structure(pdbx_file)
else:
array1 = pdbx.get_structure(pdbx_file, model=1)
pdbx.set_structure(pdbx_file, array1)
if stack:
array2 = pdbx.get_structure(pdbx_file)
else:
array2 = pdbx.get_structure(pdbx_file, model=1)
self.assertEqual(array1, array2)def _test_conversion(self, stack):
for path in self.files:
with self.subTest(id=path[-8:-4]):
pdbx_file = pdbx.PDBxFile()
pdbx_file.read(path)
if stack:
array1 = pdbx.get_structure(pdbx_file)
else:
array1 = pdbx.get_structure(pdbx_file, model=1)
pdbx.set_structure(pdbx_file, array1)
if stack:
array2 = pdbx.get_structure(pdbx_file)
else:
array2 = pdbx.get_structure(pdbx_file, model=1)
self.assertEqual(array1, array2)def _test_conversion(self, stack):
for path in self.files:
with self.subTest(id=path[-8:-4]):
pdbx_file = pdbx.PDBxFile()
pdbx_file.read(path)
if stack:
array1 = pdbx.get_structure(pdbx_file)
else:
array1 = pdbx.get_structure(pdbx_file, model=1)
pdbx.set_structure(pdbx_file, array1)
if stack:
array2 = pdbx.get_structure(pdbx_file)
else:
array2 = pdbx.get_structure(pdbx_file, model=1)
self.assertEqual(array1, array2)def _test_conversion(self, stack):
for path in self.files:
with self.subTest(id=path[-8:-4]):
pdbx_file = pdbx.PDBxFile()
pdbx_file.read(path)
if stack:
array1 = pdbx.get_structure(pdbx_file)
else:
array1 = pdbx.get_structure(pdbx_file, model=1)
pdbx.set_structure(pdbx_file, array1)
if stack:
array2 = pdbx.get_structure(pdbx_file)
else:
array2 = pdbx.get_structure(pdbx_file, model=1)
self.assertEqual(array1, array2)def __init__(self, methodName="runTest"):
super().__init__(methodName)
self.files = rcsb.fetch(pdb_ids, "cif", data_dir)biopython
Freely available tools for computational molecular biology.
