def _from_java(jtt):
return tmatrix(dtype(jtt.globalType().toString()),
dtype(jtt.colType().toString()),
jiterable_to_list(jtt.colKey()),
dtype(jtt.rowType().toString()),
jiterable_to_list(jtt.rowKey()),
dtype(jtt.entryType().toString()))
def _from_java(jtt):
return tmatrix(
dtype(jtt.globalType().toString()),
dtype(jtt.colType().toString()),
jiterable_to_list(jtt.colKey()),
dtype(jtt.rowType().toString()),
jiterable_to_list(jtt.rowKey()),
dtype(jtt.entryType().toString()))
def mt_contigs(self):
"""Mitochondrial contigs.
:rtype: list of str
"""
if self._mt_contigs is None:
self._mt_contigs = [
str(x) for x in jiterable_to_list(self._jrep.mtContigs())
]
return self._mt_contigs
def y_contigs(self):
"""Y contigs.
:rtype: list of str
"""
if self._y_contigs is None:
self._y_contigs = [
str(x) for x in jiterable_to_list(self._jrep.yContigs())
]
return self._y_contigs
def mt_contigs(self):
"""Mitochondrial contigs.
Returns
-------
:obj:`list` of :obj:`str`
"""
if self._mt_contigs is None:
self._mt_contigs = [str(x) for x in jiterable_to_list(self._jrep.mtContigs())]
return self._mt_contigs
def lengths(self):
"""Dict of contig name to contig length.
Returns
-------
:obj:`list` of :obj:`str`
"""
if self._lengths is None:
self._lengths = {str(x._1()): int(x._2()) for x in jiterable_to_list(self._jrep.lengths())}
return self._lengths
def y_contigs(self):
"""Y contigs.
Returns
-------
:obj:`list` of :obj:`str`
"""
if self._y_contigs is None:
self._y_contigs = [str(x) for x in jiterable_to_list(self._jrep.yContigs())]
return self._y_contigs
def mt_contigs(self):
"""Mitochondrial contigs.
Returns
-------
:obj:`list` of :obj:`str`
"""
if self._mt_contigs is None:
self._mt_contigs = [str(x) for x in jiterable_to_list(self._jrep.mtContigs())]
return self._mt_contigs
def y_contigs(self):
"""Y contigs.
Returns
-------
:obj:`list` of :obj:`str`
"""
if self._y_contigs is None:
self._y_contigs = [str(x) for x in jiterable_to_list(self._jrep.yContigs())]
return self._y_contigs
def lengths(self):
"""Dict of contig name to contig length.
Returns
-------
:obj:`list` of :obj:`str`
"""
if self._lengths is None:
self._lengths = {str(x._1()): int(x._2()) for x in jiterable_to_list(self._jrep.lengths())}
return self._lengths
def lengths(self):
"""Dict of contig name to contig length.
:rtype: dict of str to int
"""
if self._lengths is None:
self._lengths = {
str(x._1()): int(x._2())
for x in jiterable_to_list(self._jrep.lengths())
}
return self._lengths
def _from_java(jtbm):
return tblockmatrix(dtype(jtbm.elementType().toString()),
jiterable_to_list(jtbm.shape()), jtbm.blockSize(),
jiterable_to_list(jtbm.dimsPartitioned()))
def _from_java(jtbm):
return tblockmatrix(dtype(jtbm.elementType().toString()),
jiterable_to_list(jtbm.shape()),
jtbm.isRowVector(), jtbm.blockSize())
def _from_java(jtt):
return ttable(
dtype(jtt.globalType().toString()),
dtype(jtt.rowType().toString()),
jiterable_to_list(jtt.key()))
def _from_java(jtbm):
return tblockmatrix(
dtype(jtbm.elementType().toString()),
jiterable_to_list(jtbm.shape()),
jtbm.isRowVector(),
jtbm.blockSize())
def _from_java(jtbm):
return tblockmatrix(jiterable_to_list(jtbm.shape()), jtbm.blockSize(),
jiterable_to_list(jtbm.dimsPartitioned()))
