def setUp(self):
self.block1 = GenomeAlignmentBlock([Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:11>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:5>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>)],<EOL>"<STR_LIT>")<EOL>self.block2 = GenomeAlignmentBlock([Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:1>, <NUM_LIT:7>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:3>, <NUM_LIT:11>)],<EOL>"<STR_LIT>")<EOL>self.block3 = GenomeAlignmentBlock([Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:20>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:5>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>,<EOL><NUM_LIT>)],<EOL>"<STR_LIT>")<EOL>self.block4 = GenomeAlignmentBlock([Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:5>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>)],<EOL>"<STR_LIT>")<EOL>self.block1p = GenomeAlignmentBlock([Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:15>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT:5>, <NUM_LIT>),<EOL>Sequence("<STR_LIT>", "<STR_LIT>", <NUM_LIT>, <NUM_LIT>)],<EOL>"<STR_LIT>")<EOL>self.ga1 = GenomeAlignment([self.block1, self.block2])<EOL>self.ga2 = GenomeAlignment([self.block1, self.block2, self.block1p])<EOL>
Set up some genome alignment blocks and genome alignments for tests.