def test_directives():
data = dedent("""
##directive1 example
. . . . . . . .
. . . . . . . .
. . . . . . . .
. . . . . . . .
""")
it = iterators._StringIterator(data)
db = create_db(data, dbfn=':memory:', from_string=True, verbose=False)
assert it.directives == db.directives == ['directive1 example'], (it.directives, db.directives)
def test_directives():
data = dedent("""
##directive1 example
. . . . . . . .
. . . . . . . .
. . . . . . . .
. . . . . . . .
""")
it = iterators._StringIterator(data)
db = create_db(data, dbfn=':memory:', from_string=True, verbose=False)
assert it.directives == db.directives == ['directive1 example'
], (it.directives, db.directives)
def test_parser_from_string():
"""
make sure from string and from file return identical results
"""
line = b"chr2L FlyBase exon 7529 8116 . + . Name=CG11023:1;Parent=FBtr0300689,FBtr0300690"
tmp = tempfile.NamedTemporaryFile()
tmp.write(line)
tmp.seek(0)
p1 = iterators._StringIterator(
"chr2L FlyBase exon 7529 8116 . + . Name=CG11023:1;Parent=FBtr0300689,FBtr0300690"
)
p2 = iterators._FileIterator(tmp.name)
lines = list(zip(p1, p2))
assert len(lines) == 1
assert p1.current_item_number == p2.current_item_number == 0
assert lines[0][0] == lines[0][1]
def test_parser_from_string():
"""
make sure from string and from file return identical results
"""
line = b"chr2L FlyBase exon 7529 8116 . + . Name=CG11023:1;Parent=FBtr0300689,FBtr0300690"
tmp = tempfile.NamedTemporaryFile()
tmp.write(line)
tmp.seek(0)
p1 = iterators._StringIterator(
"chr2L FlyBase exon 7529 8116 . + . Name=CG11023:1;Parent=FBtr0300689,FBtr0300690"
)
p2 = iterators._FileIterator(tmp.name)
lines = list(zip(p1, p2))
assert len(lines) == 1
assert p1.current_item_number == p2.current_item_number == 0
assert lines[0][0] == lines[0][1]