jpayne@69: # cython: embedsignature=True
jpayne@69: # cython: profile=True
jpayne@69: # adds doc-strings for sphinx
jpayne@69: import tempfile
jpayne@69: import os
jpayne@69: import sys
jpayne@69: import types
jpayne@69: import itertools
jpayne@69: import struct
jpayne@69: import ctypes
jpayne@69: import collections
jpayne@69: import re
jpayne@69: import platform
jpayne@69: import warnings
jpayne@69: from cpython cimport PyErr_SetString, \
jpayne@69:     PyBytes_Check, \
jpayne@69:     PyUnicode_Check, \
jpayne@69:     PyBytes_FromStringAndSize
jpayne@69: 
jpayne@69: from pysam.libcalignmentfile cimport AlignmentFile, AlignedSegment
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class Samfile(AlignmentFile):
jpayne@69:     '''Deprecated alternative for :class:`~pysam.AlignmentFile`
jpayne@69: 
jpayne@69:     Added for backwards compatibility with pysam <= 0.8.0
jpayne@69:     '''
jpayne@69:     pass
jpayne@69: 
jpayne@69: 
jpayne@69: cdef class AlignedRead(AlignedSegment):
jpayne@69:     '''Deprecated alternative for :class:`~pysam.AlignedSegment`
jpayne@69: 
jpayne@69:     Added for backwards compatibility with pysam <= 0.8.0
jpayne@69:     '''
jpayne@69:     pass
jpayne@69: 
jpayne@69: 
jpayne@69: __all__ = ['Samfile', 'AlignedRead']
jpayne@69: 
jpayne@69: