except NameError:
# Python 2 does not have this,
FileNotFoundError = IOError
from Bio.SeqRecord import SeqRecord
from Bio import SeqIO
from Bio.SeqIO._index import _FormatToRandomAccess
from Bio.Alphabet import generic_protein, generic_nucleotide, generic_dna
from seq_tests_common import compare_record
from Bio import BiopythonParserWarning
from Bio import MissingPythonDependencyError
try:
from test_bgzf import _have_bug17666
do_bgzf = _have_bug17666()
except MissingPythonDependencyError:
do_bgzf = False
CUR_DIR = os.getcwd()
def add_prefix(key):
"""Dummy key_function for testing index code."""
return "id_" + key
def gzip_open(filename, format):
# At time of writing, under Python 3.2.2 seems gzip.open(filename, mode)
# insists on giving byte strings (i.e. binary mode)
# See http://bugs.python.org/issue13989
except NameError:
# Python 2 does not have this,
FileNotFoundError = IOError
from Bio.SeqRecord import SeqRecord
from Bio import SeqIO
from Bio.SeqIO._index import _FormatToRandomAccess
from Bio.Alphabet import generic_protein, generic_nucleotide, generic_dna
from seq_tests_common import compare_record
from Bio import BiopythonParserWarning
from Bio import MissingPythonDependencyError
try:
from test_bgzf import _have_bug17666
do_bgzf = _have_bug17666()
except MissingPythonDependencyError:
do_bgzf = False
CUR_DIR = os.getcwd()
def add_prefix(key):
"""Dummy key_function for testing index code."""
return "id_" + key
def gzip_open(filename, format):
# At time of writing, under Python 3.2.2 seems gzip.open(filename, mode)
# insists on giving byte strings (i.e. binary mode)
# See http://bugs.python.org/issue13989