def set_meta(self, dataset, overwrite=True, **kwd):
i = 0
for i, line in enumerate(file(dataset.file_name)):
line = line.rstrip('\r\n')
if line and not line.startswith('#'):
elems = line.split('\t')
if len(elems) == 9:
try:
int(elems[3])
int(elems[4])
break
except:
pass
Interval.set_meta(self, dataset, overwrite=overwrite, skip=i)
def set_meta( self, dataset, overwrite = True, **kwd ):
Interval.set_meta( self, dataset, overwrite = overwrite, **kwd )
return True
def __init__(self, **kwd):
"""Initialize datatype, by adding GBrowse display app"""
Interval.__init__(self, **kwd)
self.add_display_app('ucsc', 'display at UCSC', 'as_ucsc_display_file',
'ucsc_links')
def __init__(self, **kwd):
"""
Initialize datatype, by adding GBrowse display app
"""
Interval.__init__(self, **kwd)
self.add_display_app ( 'ucsc', 'display at UCSC', 'as_ucsc_display_file', 'ucsc_links' )