def runit( self, sff, output=None ):
''' Run sffs_to_fastq '''
if output is None:
path = seqio.sffs_to_fastq( sff )
else:
path = seqio.sffs_to_fastq( sff, output )
assert path == output
assert path is not None
assert is_fastq( path )
assert sff_eq_fastq( sff, path )
def runit(self, sff, output=None):
''' Run sffs_to_fastq '''
if output is None:
path = seqio.sffs_to_fastq(sff)
else:
path = seqio.sffs_to_fastq(sff, output)
assert path == output
assert path is not None
assert is_fastq(path)
assert sff_eq_fastq(sff, path)
def test_nonlist( self ):
''' Param is not a list '''
seqio.sffs_to_fastq( 'i am a string' )
seqio.sffs_to_fastq( 1 )
seqio.sffs_to_fastq( (1,2) )
def test_invalid_sff( self ):
''' One of the sff paths in list is not valid sff path '''
sff_list = [self.sff_input, 'invalid.sff']
seqio.sffs_to_fastq( sff_list )
def test_zeroitem( self ):
''' Param list is empty list '''
path = seqio.sffs_to_fastq( [], output='shouldnotexist.fastq' )
eq_( None, path )
eq_( True, not os.path.isfile( 'shouldnotexist.fastq' ) )
def test_invalid_sff(self):
''' One of the sff paths in list is not valid sff path '''
sff_list = [self.sff_input, 'invalid.sff']
seqio.sffs_to_fastq(sff_list)
def test_zeroitem(self):
''' Param list is empty list '''
path = seqio.sffs_to_fastq([], output='shouldnotexist.fastq')
eq_(None, path)
eq_(True, not os.path.isfile('shouldnotexist.fastq'))
def test_nonlist(self):
''' Param is not a list '''
seqio.sffs_to_fastq('i am a string')
seqio.sffs_to_fastq(1)
seqio.sffs_to_fastq((1, 2))
