def test_returns_correct_xml( self ):
from bactpipeline.runsample import new_assembly
# Create new assembly proj
projdir = new_assembly( )
xmlfile = join( projdir, 'assembly', '454AssemblyProject.xml' )
r = self._C( projdir, self.fqs )
xml = open(xmlfile).read()
print(xml)
eq_( 2, xml.count('ReadFiles'), 'Did not insert ReadFiles correctly' )
self.fqs_in_xml( self.fqs, xml )
def _C( self, *args, **kwargs ):
from bactpipeline.runsample import new_assembly
return new_assembly( *args, **kwargs )