def __init__(self, tlist):
""" Create a new data frame.
:param tlist: rpy2.rlike.container.TaggedList or rpy2.rinterface.SexpVector (and of class 'data.frame' for R)
"""
if isinstance(tlist, rinterface.SexpVector):
if tlist.typeof != rinterface.VECSXP:
raise ValueError("tlist should of typeof VECSXP")
if not globalenv_ri.get('inherits')(tlist, self._dataframe_name)[0]:
raise ValueError('tlist should of R class "data.frame"')
super(DataFrame, self).__init__(tlist)
elif isinstance(tlist, rlc.TaggedList):
kv = [(k, conversion.py2ri(v)) for k,v in tlist.iteritems()]
kv = tuple(kv)
df = baseenv_ri.get("data.frame").rcall(kv, globalenv_ri)
super(DataFrame, self).__init__(df)
elif hasattr(tlist, "__iter__"):
if not callable(tlist.__iter__):
raise ValueError("tlist should have a /method/ __iter__ (not an attribute)")
kv = [(str(k), conversion.py2ri(tlist[k])) for k in tlist]
df = baseenv_ri.get("data.frame").rcall(tuple(kv), globalenv_ri)
super(DataFrame, self).__init__(df)
else:
raise ValueError("tlist can be either "+
"an instance of an iter-able class" +
"(such a Python dict, rpy2.rlike.container OrdDict" +
" or an instance of rpy2.rinterface.SexpVector" +
" of type VECSXP")
def __init__(self, tlist):
""" Create a new data frame.
:param tlist: rpy2.rlike.container.TaggedList or rpy2.rinterface.SexpVector (and of class 'data.frame' for R)
"""
if isinstance(tlist, rinterface.SexpVector):
if tlist.typeof != rinterface.VECSXP:
raise ValueError("tlist should of typeof VECSXP")
if not globalenv_ri.get('inherits')(tlist,
self._dataframe_name)[0]:
raise ValueError('tlist should of R class "data.frame"')
super(DataFrame, self).__init__(tlist)
elif isinstance(tlist, rlc.TaggedList):
kv = [(k, conversion.py2ri(v)) for k, v in tlist.iteritems()]
kv = tuple(kv)
df = baseenv_ri.get("data.frame").rcall(kv, globalenv_ri)
super(DataFrame, self).__init__(df)
elif hasattr(tlist, "__iter__"):
if not callable(tlist.__iter__):
raise ValueError(
"tlist should have a /method/ __iter__ (not an attribute)")
kv = [(str(k), conversion.py2ri(tlist[k])) for k in tlist]
df = baseenv_ri.get("data.frame").rcall(tuple(kv), globalenv_ri)
super(DataFrame, self).__init__(df)
else:
raise ValueError(
"tlist can be either " + "an instance of an iter-able class" +
"(such a Python dict, rpy2.rlike.container OrdDict" +
" or an instance of rpy2.rinterface.SexpVector" +
" of type VECSXP")
def __call__(self, *args, **kwargs):
new_args = [conversion.py2ri(a) for a in args]
new_kwargs = {}
for k, v in kwargs.iteritems():
new_kwargs[k] = conversion.py2ri(v)
res = super(Function, self).__call__(*new_args, **new_kwargs)
res = conversion.ri2py(res)
return res
def __call__(self, *args, **kwargs):
new_args = [conversion.py2ri(a) for a in args]
new_kwargs = {}
for k, v in kwargs.iteritems():
new_kwargs[k] = conversion.py2ri(v)
res = super(Function, self).__call__(*new_args, **new_kwargs)
res = conversion.ri2py(res)
return res
def __init__(self, o):
if not isinstance(o, SexpVector):
o = conversion.py2ri(o)
super(Vector, self).__init__(o)
self.ro = VectorOperationsDelegator(self)
self.rx = ExtractDelegator(self)
self.rx2 = DoubleExtractDelegator(self)
def __init__(self, tlist):
""" Create a new data frame.
:param tlist: rpy2.rlike.container.TaggedList or rpy2.rinterface.SexpVector (and of class 'data.frame' for R)
"""
if isinstance(tlist, rlc.TaggedList):
df = baseenv_ri.get("data.frame").rcall(tlist.items(),
globalenv_ri)
super(DataFrame, self).__init__(df)
elif isinstance(tlist, rinterface.SexpVector):
if tlist.typeof != rinterface.VECSXP:
raise ValueError("tlist should of typeof VECSXP")
if not globalenv_ri.get('inherits')(tlist,
self._dataframe_name)[0]:
raise ValueError('tlist should of R class "data.frame"')
super(DataFrame, self).__init__(tlist)
elif isinstance(tlist, dict):
kv = [(k, conversion.py2ri(v)) for k, v in tlist.iteritems()]
kv = tuple(kv)
df = baseenv_ri.get("data.frame").rcall(kv, globalenv_ri)
super(DataFrame, self).__init__(df)
else:
raise ValueError(
"tlist can be either " +
"an instance of rpy2.rlike.container.TaggedList," +
" or an instance of rpy2.rinterface.SexpVector" +
" of type VECSXP, or a Python dict.")
def default_py2ro(o):
""" Convert any Python object into an robject.
:param o: object
:rtype: :class:`rpy2.robjects.RObject (and subclasses)`
"""
res = conversion.py2ri(o)
return conversion.ri2py(res)
def default_py2ro(o):
""" Convert any Python object into an robject.
:param o: object
:rtype: :class:`rpy2.robjects.RObject (and subclasses)`
"""
res = conversion.py2ri(o)
return conversion.ri2py(res)
def __init__(self, o):
if not isinstance(o, SexpVector):
o = conversion.py2ri(o)
super(Vector, self).__init__(o)
self.ro = VectorOperationsDelegator(self)
self.rx = ExtractDelegator(self)
self.rx2 = DoubleExtractDelegator(self)
def default_py2ri(o):
""" Convert arbitrary Python object to :class:`rpy2.rinterface.Sexp` to objects,
creating an R object with the content of the Python object in the process
(wich means data copying).
:param o: object
:rtype: :class:`rpy2.rinterface.Sexp` (and subclasses)
"""
if isinstance(o, RObject):
res = rinterface.Sexp(o)
if isinstance(o, Sexp):
res = o
elif isinstance(o, array.array):
if o.typecode in ('h', 'H', 'i', 'I'):
res = rinterface.SexpVector(o, rinterface.INTSXP)
elif o.typecode in ('f', 'd'):
res = rinterface.SexpVector(o, rinterface.REALSXP)
else:
raise (ValueError(
"Nothing can be done for this array type at the moment."))
elif isinstance(o, bool):
res = rinterface.SexpVector([
o,
], rinterface.LGLSXP)
elif isinstance(o, int) or isinstance(o, long):
# special case for NA_Logical
if o is rinterface.NA_Logical:
res = rinterface.SexpVector([
o,
], rinterface.LGLSXP)
else:
res = rinterface.SexpVector([
o,
], rinterface.INTSXP)
elif isinstance(o, float):
res = rinterface.SexpVector([
o,
], rinterface.REALSXP)
elif isinstance(o, str):
res = rinterface.SexpVector([
o,
], rinterface.STRSXP)
elif isinstance(o, unicode):
res = rinterface.SexpVector([
o,
], rinterface.STRSXP)
elif isinstance(o, list):
res = r.list(*[conversion.ri2py(conversion.py2ri(x)) for x in o])
elif isinstance(o, complex):
res = rinterface.SexpVector([
o,
], rinterface.CPLXSXP)
else:
raise (ValueError(
"Nothing can be done for the type %s at the moment." % (type(o))))
return res
def __init__(self, tlist):
if isinstance(tlist, rinterface.SexpVector):
if tlist.typeof != rinterface.VECSXP:
raise ValueError("tlist should of typeof VECSXP")
super(ListVector, self).__init__(tlist)
elif isinstance(tlist, rlc.TaggedList):
kv = [(k, conversion.py2ri(v)) for k,v in tlist.iteritems()]
kv = tuple(kv)
df = baseenv_ri.get("list").rcall(kv, globalenv_ri)
super(ListVector, self).__init__(df)
elif hasattr(tlist, "__iter__"):
if not callable(tlist.__iter__):
raise ValueError("tlist should have a /method/ __iter__ (not an attribute)")
kv = [(str(k), conversion.py2ri(tlist[k])) for k in tlist]
kv = tuple(kv)
df = baseenv_ri.get("list").rcall(kv, globalenv_ri)
super(ListVector, self).__init__(df)
else:
raise ValueError("tlist can be either "+
"an iter-able " +
" or an instance of rpy2.rinterface.SexpVector" +
" of type VECSXP, or a Python dict.")
def __init__(self, tlist):
if isinstance(tlist, rinterface.SexpVector):
if tlist.typeof != rinterface.VECSXP:
raise ValueError("tlist should of typeof VECSXP")
super(ListVector, self).__init__(tlist)
elif isinstance(tlist, rlc.TaggedList):
kv = [(k, conversion.py2ri(v)) for k, v in tlist.iteritems()]
kv = tuple(kv)
df = baseenv_ri.get("list").rcall(kv, globalenv_ri)
super(ListVector, self).__init__(df)
elif hasattr(tlist, "__iter__"):
if not callable(tlist.__iter__):
raise ValueError(
"tlist should have a /method/ __iter__ (not an attribute)")
kv = [(str(k), conversion.py2ri(tlist[k])) for k in tlist]
kv = tuple(kv)
df = baseenv_ri.get("list").rcall(kv, globalenv_ri)
super(ListVector, self).__init__(df)
else:
raise ValueError("tlist can be either " + "an iter-able " +
" or an instance of rpy2.rinterface.SexpVector" +
" of type VECSXP, or a Python dict.")
def __init__(self, obj):
""" Create a new data frame.
:param obj: object inheriting from rpy2.rinterface.SexpVector,
or inheriting from TaggedList
or a mapping name -> value
"""
if isinstance(obj, rinterface.SexpVector):
if obj.typeof != rinterface.VECSXP:
raise ValueError("obj should of typeof VECSXP"+\
" (and we get %s)" % rinterface.str_typeint(obj.typeof))
if self._is_list(obj)[0] or \
globalenv_ri.get('inherits')(obj, self._dataframe_name)[0]:
#FIXME: is it really a good idea to pass R lists
# to the constructor ?
super(DataFrame, self).__init__(obj)
else:
raise ValueError(
"When passing R objects to build a DataFrame," +\
" the R object must be a list or inherit from" +\
" the R class 'data.frame'")
elif isinstance(obj, rlc.TaggedList):
kv = [(k, conversion.py2ri(v)) for k,v in obj.items()]
kv = tuple(kv)
df = baseenv_ri.get("data.frame").rcall(kv, globalenv_ri)
super(DataFrame, self).__init__(df)
else:
try:
kv = [(str(k), conversion.py2ri(obj[k])) for k in obj]
except TypeError:
raise ValueError("obj can be either "+
"an instance of an iter-able class" +
"(such a Python dict, rpy2.rlike.container OrdDict" +
" or an instance of rpy2.rinterface.SexpVector" +
" of type VECSXP")
df = baseenv_ri.get("data.frame").rcall(tuple(kv), globalenv_ri)
super(DataFrame, self).__init__(df)
def default_py2ri(o):
""" Convert arbitrary Python object to :class:`rpy2.rinterface.Sexp` to objects,
creating an R object with the content of the Python object in the process
(wich means data copying).
:param o: object
:rtype: :class:`rpy2.rinterface.Sexp` (and subclasses)
"""
if isinstance(o, RObject):
res = rinterface.Sexp(o)
if isinstance(o, Sexp):
res = o
elif isinstance(o, array.array):
if o.typecode in ('h', 'H', 'i', 'I'):
res = rinterface.SexpVector(o, rinterface.INTSXP)
elif o.typecode in ('f', 'd'):
res = rinterface.SexpVector(o, rinterface.REALSXP)
else:
raise(ValueError("Nothing can be done for this array type at the moment."))
elif isinstance(o, bool):
res = rinterface.SexpVector([o, ], rinterface.LGLSXP)
elif isinstance(o, int) or isinstance(o, long):
# special case for NA_Logical
if o is rinterface.NA_Logical:
res = rinterface.SexpVector([o, ], rinterface.LGLSXP)
else:
res = rinterface.SexpVector([o, ], rinterface.INTSXP)
elif isinstance(o, float):
res = rinterface.SexpVector([o, ], rinterface.REALSXP)
elif isinstance(o, str):
res = rinterface.SexpVector([o, ], rinterface.STRSXP)
elif isinstance(o, unicode):
res = rinterface.SexpVector([o, ], rinterface.STRSXP)
elif isinstance(o, list):
res = r.list(*[conversion.ri2py(conversion.py2ri(x)) for x in o])
elif isinstance(o, complex):
res = rinterface.SexpVector([o, ], rinterface.CPLXSXP)
else:
raise(ValueError("Nothing can be done for the type %s at the moment." %(type(o))))
return res
def __init__(self, tlist):
""" Create a new data frame.
:param tlist: rpy3.rlike.container.TaggedList or rpy3.rinterface.SexpVector (and of class 'data.frame' for R)
"""
if isinstance(tlist, rlc.TaggedList):
df = baseenv_ri.get("data.frame").rcall(tlist.items(), globalenv_ri)
super(DataFrame, self).__init__(df)
elif isinstance(tlist, rinterface.SexpVector):
if tlist.typeof != rinterface.VECSXP:
raise ValueError("tlist should of typeof VECSXP")
if not globalenv_ri.get('inherits')(tlist, self._dataframe_name)[0]:
raise ValueError('tlist should of R class "data.frame"')
super(DataFrame, self).__init__(tlist)
elif isinstance(tlist, dict):
kv = [(k, conversion.py2ri(v)) for k,v in tlist.iteritems()]
kv = tuple(kv)
df = baseenv_ri.get("data.frame").rcall(kv, globalenv_ri)
super(DataFrame, self).__init__(df)
else:
raise ValueError("tlist can be either "+
"an instance of rpy3.rlike.container.TaggedList," +
" or an instance of rpy3.rinterface.SexpVector" +
" of type VECSXP, or a Python dict.")
def __ge__(self, x):
res = globalenv_ri.get(">=")(self._parent, conversion.py2ri(x))
return conversion.ri2py(res)
def __ge__(self, x):
res = globalenv_ri.get(">=")(self._parent, conversion.py2ri(x))
return conversion.ri2py(res)
def __add__(self, x):
res = baseenv_ri.get("c")(self, conversion.py2ri(x))
res = conversion.ri2py(res)
return res
def __setitem__(self, i, value):
value = conversion.py2ri(value)
res = super(Vector, self).__setitem__(i, value)
def validobject(self, test = False, complete = False):
""" Return whether the instance is 'valid' for its class. """
test = conversion.py2ri(test)
complete = conversion.py2ri(complete)
return methods_env['validObject'](self, test = test,
complete = complete)[0]
def __add__(self, x):
res = baseenv_ri.get("c")(self, conversion.py2ri(x))
res = conversion.ri2py(res)
return res
def __setitem__(self, i, value):
value = conversion.py2ri(value)
res = super(Vector, self).__setitem__(i, value)
def _set_rownames(self, rownames):
res = baseenv_ri["rownames<-"](self, conversion.py2ri(rownames))
self.__sexp__ = res.__sexp__
def isclass(name):
""" Return whether the given name is a defined class. """
name = conversion.py2ri(name)
return methods_env['isClass'](name)[0]
def isclass(name):
""" Return whether the given name is a defined class. """
name = conversion.py2ri(name)
return methods_env['isClass'](name)[0]
def _set_colnames(self, colnames):
res = baseenv_ri["colnames<-"](self, conversion.py2ri(colnames))
self.__sexp__ = res.__sexp__
def _set_rownames(self, rownames):
res = baseenv_ri["rownames<-"](self, conversion.py2ri(rownames))
self.__sexp__ = res.__sexp__
def validobject(self, test=False, complete=False):
""" Return whether the instance is 'valid' for its class. """
test = conversion.py2ri(test)
complete = conversion.py2ri(complete)
return methods_env['validObject'](self, test=test,
complete=complete)[0]
def _set_colnames(self, colnames):
res = baseenv_ri["colnames<-"](self, conversion.py2ri(colnames))
self.__sexp__ = res.__sexp__