def __str__(self):
from SAP.Bio._py3k import StringIO
handle = StringIO()
save(self, handle)
handle.seek(0)
return handle.read()
CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ----
ALEU_HORVU MAHARVLLLA LAVLATAAVA VASSSSFADS NPIRPVTDRA ASTLESAVLG
CATH_HUMAN ------MWAT LPLLCAGAWL LGV------- -PVCGAAELS VNSLEK----
CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ---X
;
end;
""")
for a in NexusIterator(handle):
print(a)
for r in a:
print("%r %s %s" % (r.seq, r.name, r.id))
print("Done")
print("")
print("Reading an empty file")
assert 0 == len(list(NexusIterator(StringIO())))
print("Done")
print("")
print("Writing...")
handle = StringIO()
NexusWriter(handle).write_file([a])
handle.seek(0)
print(handle.read())
handle = StringIO()
try:
NexusWriter(handle).write_file([a, a])
assert False, "Should have rejected more than one alignment!"
except ValueError:
pass
def __str__(self):
from SAP.Bio._py3k import StringIO
handle = StringIO()
save(self, handle)
handle.seek(0)
return handle.read()