def _dblinks(self):
s = []
for entry in self.dblinks:
s.append(entry[0] + ": " + " ".join(entry[1]))
return _write_kegg("DBLINKS",
[_wrap_kegg(l, wrap_rule = id_wrap(9))
for l in s])
def _genes(self):
s = []
for entry in self.genes:
s.append(entry[0] + ": " + " ".join(entry[1]))
return _write_kegg("GENES",
[_wrap_kegg(l, wrap_rule = id_wrap(5))
for l in s])
def _pathway(self):
s = []
for entry in self.pathway:
s.append(entry[0] + ": " + entry[1] + " " + entry[2])
return _write_kegg("PATHWAY",
[_wrap_kegg(l, wrap_rule = id_wrap(16))
for l in s])
def _disease(self):
s = []
for entry in self.disease:
s.append(entry[0] + ": " + entry[1] + " " + entry[2])
return _write_kegg("DISEASE",
[_wrap_kegg(l, wrap_rule = id_wrap(13))
for l in s])
def _structures(self):
s = []
for entry in self.structures:
s.append(entry[0] + ": " + " ".join(entry[1]) + " ")
return _write_kegg("STRUCTURES",
[_wrap_kegg(l, wrap_rule = struct_wrap(5))
for l in s])
def _enzyme(self):
s = ""
for entry in self.enzyme:
if entry[1]:
t = entry[0] + " (" + entry[1] + ")"
else:
t = entry[0]
s = s + t.ljust(16)
return _write_kegg("ENZYME", [_wrap_kegg(s, wrap_rule=id_wrap(0))])
def _dblinks(self):
# This is a bit of a cheat that won't work if enzyme entries
# have more than one link id per db id. For now, that's not
# the case - storing links ids in a list is only to make
# this class similar to the Compound.Record class.
s = []
for entry in self.dblinks:
s.append(entry[0] + ": " + " ".join(entry[1]))
return _write_kegg("DBLINKS", s)
def _dblinks(self):
# This is a bit of a cheat that won't work if enzyme entries
# have more than one link id per db id. For now, that's not
# the case - storing links ids in a list is only to make
# this class similar to the Compound.Record class.
s = []
for entry in self.dblinks:
s.append(entry[0] + ": " + " ".join(entry[1]))
return _write_kegg("DBLINKS", s)
def _enzyme(self):
s = ""
for entry in self.enzyme:
if entry[1]:
t = entry[0] + " (" + entry[1] + ")"
else:
t = entry[0]
s = s + t.ljust(16)
return _write_kegg("ENZYME",
[_wrap_kegg(s, wrap_rule = id_wrap(0))])
def _sysname(self):
return _write_kegg(
"SYSNAME",
[_wrap_kegg(l, wrap_rule=name_wrap) for l in self.sysname])
def _mass(self):
return _write_kegg("MASS", [self.mass])
def _cofactor(self):
return _write_kegg("COFACTOR",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.cofactor])
def _comment(self):
return _write_kegg("COMMENT",
[_wrap_kegg(l, wrap_rule = id_wrap(0))
for l in self.comment])
def _reaction(self):
return _write_kegg("REACTION",
[_wrap_kegg(l, wrap_rule = rxn_wrap)
for l in self.reaction])
def _product(self):
return _write_kegg("PRODUCT",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.product])
def _structures(self):
s = []
for entry in self.structures:
s.append(entry[0] + ": " + " ".join(entry[1]) + " ")
return _write_kegg(
"STRUCTURES", [_wrap_kegg(l, wrap_rule=struct_wrap(5)) for l in s])
def _classname(self):
return _write_kegg("CLASS",
self.classname)
def _genes(self):
s = []
for entry in self.genes:
s.append(entry[0] + ": " + " ".join(entry[1]))
return _write_kegg("GENES",
[_wrap_kegg(l, wrap_rule=id_wrap(5)) for l in s])
def _disease(self):
s = []
for entry in self.disease:
s.append(entry[0] + ": " + entry[1] + " " + entry[2])
return _write_kegg("DISEASE",
[_wrap_kegg(l, wrap_rule=id_wrap(13)) for l in s])
def _pathway(self):
s = []
for entry in self.pathway:
s.append(entry[0] + ": " + entry[1] + " " + entry[2])
return _write_kegg("PATHWAY",
[_wrap_kegg(l, wrap_rule=id_wrap(16)) for l in s])
def _comment(self):
return _write_kegg(
"COMMENT",
[_wrap_kegg(l, wrap_rule=id_wrap(0)) for l in self.comment])
def _effector(self):
return _write_kegg(
"EFFECTOR",
[_wrap_kegg(l, wrap_rule=name_wrap) for l in self.effector])
def _cofactor(self):
return _write_kegg(
"COFACTOR",
[_wrap_kegg(l, wrap_rule=name_wrap) for l in self.cofactor])
def _product(self):
return _write_kegg(
"PRODUCT",
[_wrap_kegg(l, wrap_rule=name_wrap) for l in self.product])
def _name(self):
return _write_kegg("NAME",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.name])
def _entry(self):
return _write_kegg("ENTRY", ["EC " + self.entry])
def _sysname(self):
return _write_kegg("SYSNAME",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.sysname])
def _name(self):
return _write_kegg(
"NAME", [_wrap_kegg(l, wrap_rule=name_wrap) for l in self.name])
def _substrate(self):
return _write_kegg("SUBSTRATE",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.substrate])
def _formula(self):
return _write_kegg("FORMULA", [self.formula])
def _inhibitor(self):
return _write_kegg("INHIBITOR",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.inhibitor])
def _substrate(self):
return _write_kegg(
"SUBSTRATE",
[_wrap_kegg(l, wrap_rule=name_wrap) for l in self.substrate])
def _effector(self):
return _write_kegg("EFFECTOR",
[_wrap_kegg(l, wrap_rule = name_wrap)
for l in self.effector])
def _formula(self):
return _write_kegg("FORMULA",
[self.formula])
def _reaction(self):
return _write_kegg(
"REACTION",
[_wrap_kegg(l, wrap_rule=rxn_wrap) for l in self.reaction])
def _mass(self):
return _write_kegg("MASS",
[self.mass])
def _classname(self):
return _write_kegg("CLASS", self.classname)
def _entry(self):
return _write_kegg("ENTRY",
["EC " + self.entry])
def _dblinks(self):
s = []
for entry in self.dblinks:
s.append(entry[0] + ": " + " ".join(entry[1]))
return _write_kegg("DBLINKS",
[_wrap_kegg(l, wrap_rule=id_wrap(9)) for l in s])
def _inhibitor(self):
return _write_kegg(
"INHIBITOR",
[_wrap_kegg(l, wrap_rule=name_wrap) for l in self.inhibitor])
