def val(self, new_value):
self._val = PstData._fixup_input_val(
new_value,
row_count=len(self._row),
col_count=len(self._col),
empty_creator=lambda row_count, col_count: np.empty(
[row_count, col_count], dtype=np.float64))
self._assert_iid0_iid1(check_val=True)
def __init__(self,
iid=None,
iid0=None,
iid1=None,
val=None,
name=None,
parent_string=None,
xp=None
): #!!!autodoc doesn't generate good doc for this constructor
#We don't have a 'super(KernelData, self).__init__()' here because KernelData takes full responsibility for initializing both its superclasses
xp = pstutil.array_module(xp)
self._val = None
#!!why does SnpData __init__ have a copy_inputs, but KernelData doesn't?
assert (iid is None) != (
iid0 is None and iid1 is None
), "Either 'iid' or both 'iid0' 'iid1' must be provided."
assert name is None or parent_string is None, "Can't set both 'name' and the deprecated 'parent_string'"
if parent_string is not None:
warnings.warn("'parent_string' is deprecated. Use 'name'",
DeprecationWarning)
if iid is not None:
self._row = PstData._fixup_input(
iid,
empty_creator=lambda ignore: np.empty([0, 2], dtype='str'),
dtype='str')
self._col = self._row
else:
self._row = PstData._fixup_input(
iid0,
empty_creator=lambda ignore: np.empty([0, 2], dtype='str'),
dtype='str')
self._col = PstData._fixup_input(
iid1,
empty_creator=lambda ignore: np.empty([0, 2], dtype='str'),
dtype='str')
self._row_property = PstData._fixup_input(
None,
count=len(self._row),
empty_creator=lambda count: np.empty([count, 0], dtype='str'),
dtype='str')
self._col_property = PstData._fixup_input(
None,
count=len(self._col),
empty_creator=lambda count: np.empty([count, 0], dtype='str'),
dtype='str')
self._val = PstData._fixup_input_val(
val,
row_count=len(self._row),
col_count=len(self._col),
empty_creator=lambda row_count, col_count: xp.empty(
[row_count, col_count], dtype=xp.float64),
xp=xp)
self._assert_iid0_iid1(check_val=True)
self._name = name or parent_string or ""
self._std_string_list = []
self._xp = xp
def val(self, new_value):
self._val = PstData._fixup_input_val(
new_value,
row_count=len(self._row),
col_count=len(self._col),
empty_creator=lambda row_count, col_count: np.empty(
[row_count, col_count, 3], dtype=np.float64)
) #!!!Replace empty with my FillNA method?
self._assert_iid_sid_pos(check_val=True)
def __init__(self, iid, sid, val, pos=None, name=None, parent_string=None, copyinputs_function=None):
if parent_string is not None:
warnings.warn("'parent_string' is deprecated. Use 'name'", DeprecationWarning)
self._row = PstData._fixup_input(iid,empty_creator=lambda ignore:np.empty([0,2],dtype=str))
self._col = PstData._fixup_input(sid,empty_creator=lambda ignore:np.empty([0],dtype=str))
self._row_property = PstData._fixup_input(None,count=len(self._row),empty_creator=lambda count:np.empty([count,0],dtype=str))
self._col_property = PstData._fixup_input(pos,count=len(self._col),empty_creator=lambda count:np.array([[np.nan, np.nan, np.nan]]*count))
self.val = PstData._fixup_input_val(val,row_count=len(self._row),col_count=len(self._col),empty_creator=lambda row_count,col_count:np.empty([row_count,col_count],dtype=np.float64))
self._assert_iid_sid_pos()
self._name = name or parent_string or ""
self._std_string_list = []
def __init__(self, iid, sid, val, pos=None, name=None, copyinputs_function=None):
#We don't have a 'super(DistData, self).__init__()' here because DistData takes full responsibility for initializing both its superclasses
self._val = None
self._row = PstData._fixup_input(iid,empty_creator=lambda ignore:np.empty([0,2],dtype='str'),dtype='str')
self._col = PstData._fixup_input(sid,empty_creator=lambda ignore:np.empty([0],dtype='str'),dtype='str')
self._row_property = PstData._fixup_input(None,count=len(self._row),empty_creator=lambda count:np.empty([count,0],dtype='str'),dtype='str')
self._col_property = PstData._fixup_input(pos,count=len(self._col),empty_creator=lambda count:np.full([count, 3], np.nan))
self._val = PstData._fixup_input_val(val,row_count=len(self._row),col_count=len(self._col),empty_creator=lambda row_count,col_count:np.empty([row_count,col_count,3],dtype=np.float64))#!!!Replace empty with my FillNA method?
self._assert_iid_sid_pos(check_val=True)
self._name = name or ""
self._std_string_list = []
def __init__(self, iid, sid, val, pos=None, name=None, parent_string=None, copyinputs_function=None):
#We don't have a 'super(SnpData, self).__init__()' here because SnpData takes full responsiblity for initializing both its superclasses
self.val = None
if parent_string is not None:
warnings.warn("'parent_string' is deprecated. Use 'name'", DeprecationWarning)
self._row = PstData._fixup_input(iid,empty_creator=lambda ignore:np.empty([0,2],dtype='S'),dtype='S')
self._col = PstData._fixup_input(sid,empty_creator=lambda ignore:np.empty([0],dtype='S'),dtype='S')
self._row_property = PstData._fixup_input(None,count=len(self._row),empty_creator=lambda count:np.empty([count,0],dtype='S'),dtype='S')
self._col_property = PstData._fixup_input(pos,count=len(self._col),empty_creator=lambda count:np.array([[np.nan, np.nan, np.nan]]*count))
self.val = PstData._fixup_input_val(val,row_count=len(self._row),col_count=len(self._col),empty_creator=lambda row_count,col_count:np.empty([row_count,col_count],dtype=np.float64))
self._assert_iid_sid_pos()
self._name = name or parent_string or ""
self._std_string_list = []
def __init__(self, iid, sid, val, pos=None, name=None, parent_string=None, copyinputs_function=None):
#We don't have a 'super(SnpData, self).__init__()' here because SnpData takes full responsiblity for initializing both its superclasses
self.val = None
if parent_string is not None:
warnings.warn("'parent_string' is deprecated. Use 'name'", DeprecationWarning)
self._row = PstData._fixup_input(iid,empty_creator=lambda ignore:np.empty([0,2],dtype=str))
self._col = PstData._fixup_input(sid,empty_creator=lambda ignore:np.empty([0],dtype=str))
self._row_property = PstData._fixup_input(None,count=len(self._row),empty_creator=lambda count:np.empty([count,0],dtype=str))
self._col_property = PstData._fixup_input(pos,count=len(self._col),empty_creator=lambda count:np.array([[np.nan, np.nan, np.nan]]*count))
self.val = PstData._fixup_input_val(val,row_count=len(self._row),col_count=len(self._col),empty_creator=lambda row_count,col_count:np.empty([row_count,col_count],dtype=np.float64))
self._assert_iid_sid_pos()
self._name = name or parent_string or ""
self._std_string_list = []
def __init__(self,
iid,
sid,
val,
pos=None,
name=None,
parent_string=None,
copyinputs_function=None,
xp=None,
_require_float32_64=True):
#We don't have a 'super(SnpData, self).__init__()' here because SnpData takes full responsibility for initializing both its superclasses
xp = pstutil.array_module(xp)
self._val = None
if parent_string is not None:
warnings.warn("'parent_string' is deprecated. Use 'name'",
DeprecationWarning)
self._row = PstData._fixup_input(
iid,
empty_creator=lambda ignore: np.empty([0, 2], dtype='str'),
dtype='str')
self._col = PstData._fixup_input(
sid,
empty_creator=lambda ignore: np.empty([0], dtype='str'),
dtype='str')
self._row_property = PstData._fixup_input(
None,
count=len(self._row),
empty_creator=lambda count: np.empty([count, 0], dtype='str'),
dtype='str')
self._col_property = PstData._fixup_input(
pos,
count=len(self._col),
empty_creator=lambda count: np.full([count, 3], np.nan))
self._val = PstData._fixup_input_val(
val,
row_count=len(self._row),
col_count=len(self._col),
empty_creator=lambda row_count, col_count: np.empty(
[row_count, col_count], dtype=np.float64),
_require_float32_64=_require_float32_64,
xp=xp)
self._assert_iid_sid_pos(check_val=True)
self._name = name or parent_string or ""
self._std_string_list = []
self._xp = xp
def __init__(self, iid=None, iid0=None, iid1=None, val=None, name=None, parent_string=None): #!!!autodoc doesn't generate good doc for this constructor
#!!why does SnpData __init__ have a copy_inputs, but KernelData doesn't?
assert (iid is None) != (iid0 is None and iid1 is None), "Either 'iid' or both 'iid0' 'iid1' must be provided."
assert name is None or parent_string is None, "Can't set both 'name' and the deprecated 'parent_string'"
if parent_string is not None:
warnings.warn("'parent_string' is deprecated. Use 'name'", DeprecationWarning)
if iid is not None:
self._row = PstData._fixup_input(iid,empty_creator=lambda ignore:np.empty([0,2],dtype=str))
self._col = self._row
else:
self._row = PstData._fixup_input(iid0,empty_creator=lambda ignore:np.empty([0,2],dtype=str))
self._col = PstData._fixup_input(iid1,empty_creator=lambda ignore:np.empty([0,2],dtype=str))
self._row_property = PstData._fixup_input(None,count=len(self._row),empty_creator=lambda count:np.empty([count,0],dtype=str))
self._col_property = PstData._fixup_input(None,count=len(self._col),empty_creator=lambda count:np.empty([count,0],dtype=str))
self.val = PstData._fixup_input_val(val,row_count=len(self._row),col_count=len(self._col),empty_creator=lambda row_count,col_count:np.empty([row_count,col_count],dtype=np.float64))
self._assert_iid0_iid1()
self._name = name or parent_string or ""
self._std_string_list = []