toremove = []
def cleanup():
for d in toremove:
shutil.rmtree(d, ignore_errors=True)
atexit.register(cleanup)
if len(sys.argv) == 2 and sys.argv[1] == '--GUI':
from optparse_gui.needswx import *
sys.exit(1)
if len(sys.argv) == 1:
if not GUI():
print("Graphical user-interface unavailable.", file=sys.stderr)
sys.exit(1)
from optparse_gui import OptionParserGUI
parser = OptionParserGUI(version=VERSION)
error_kwargs = {'exit': False}
sys.excepthook = excepthook
else:
parser = OptionParser(version=VERSION)
error_kwargs = {}
advanced = OptionGroup(parser, "Advanced")
parser.add_option("-s",
"--snvs",
type="files",
dest="snvs",
print >> sys.stderr, "Type <Enter> to Exit...",
sys.stderr.flush()
raw_input()
toremove = []
def cleanup():
for d in toremove:
shutil.rmtree(d, ignore_errors=True)
atexit.register(cleanup)
if not GUI() and len(sys.argv) == 2 and sys.argv[1] == '--GUI':
from optparse_gui.needswx import *
sys.exit(1)
if GUI() and len(sys.argv) == 1:
from optparse_gui import OptionParserGUI
parser = OptionParserGUI(version=VERSION)
error_kwargs = {'exit': False}
sys.excepthook = excepthook
else:
parser = OptionParser(version=VERSION)
error_kwargs = {}
advanced = OptionGroup(parser, "Advanced")
parser.add_option("-s",
"--snvs",
input()
sys.excepthook = excepthook
toremove = []
def cleanup():
for d in toremove:
shutil.rmtree(d, ignore_errors=True)
atexit.register(cleanup)
if GUI() and len(sys.argv) == 1:
from optparse_gui import OptionParserGUI
parser = OptionParserGUI(version=VERSION)
error_kwargs = {'exit': False}
else:
parser = OptionParser(version=VERSION)
error_kwargs = {}
parser.add_option("-c",
"--counts",
type="files",
dest="counts",
default=None,
help="Read counts per SNP/Junction",
name="SNP/Junction Counts",
remember=True,
