from misc import expand_iupac
from misc import reverseComplement
from misc import infer_read_file_name
from misc import make_sure_path_exists
from misc import expand_path
from misc import parse_flash
from misc import sp_gzip_read
from misc import sp_gzip_write

from primers import primerTable
from samples import sampleTable

from sequenceReads import TwoSequenceReadSet
from sequenceReads import OneSequenceReadSet

from illuminaRun import TwoReadIlluminaRun
from illuminaRun import OneReadIlluminaRun
from illuminaRun import IlluminaTwoReadOutput
from illuminaRun import IlluminaOneReadOutput
from illuminaRun import IlluminaFastaOutput

from validate_app import validateApp
from preprocess_app import preprocessApp
from mapping_app import mappingApp

from ._versioninfo import version_num, __version__