def DoFetchObsoletes(filename):
obs = []
fetch_ok = True
try:
pdblist = PDBList()
sys.stdout.write(
"INFO: Fetching obsolete structure information online...\n")
obs = pdblist.get_all_obsolete()
except:
fetch_ok = False
sys.stderr.write(
"[FAILED]\nUnable to fetch obsolete structures information online.\n"
)
if fetch_ok:
sys.stdout.write("[OK].\n")
try:
with open(filename, 'w') as f:
for ob in obs:
f.write("%s\n" % ob)
fetch_ok = True
except IOError:
sys.stderr.write(
"ERROR: Could not write obsoletes into file: '%s'.\n" %
filename)
fetch_ok = False
return fetch_ok, obs
def test_get_all_obsolete(self):
"""Tests the Bio.PDB.PDBList.get_all_obsolete method."""
pdblist = PDBList(
obsolete_pdb="unimportant"
) # obsolete_pdb declared to prevent from creating the "obsolete" directory
entries = pdblist.get_all_obsolete()
# As number of obsolete entries constantly grow, test checks if a certain number was exceeded
self.assertTrue(len(entries) > 3000)
def test_get_all_obsolete(self):
"""Tests the Bio.PDB.PDBList.get_all_obsolete method."""
pdblist = PDBList(obsolete_pdb="unimportant") # obsolete_pdb declared to prevent from creating the "obsolete" directory
entries = pdblist.get_all_obsolete()
# As number of obsolete entries constantly grow, test checks if a certain number was exceeded
self.assertTrue(len(entries) > 3000)