def test_check_outfile_exist(self): """ check if ./MetaSim finished running, should produce 2 output files only pass if both exist TODO: need to check -d outfile_dir. MetaSim automatically change the filename name """ model_infile_var = "ErrorModelSolexa36bp.mconf" taxon_infile_var = "MetaSim_bint.mprf" outfile_var = "MetaSim_bint-454.20e39f4c.fna" metasim = RunMetaSim(model_file=model_infile_var, no_reads=100, taxon_infile=taxon_infile_var, pdir=self.data_dir, wdir=self.working_dir, filename=outfile_var, check_exist=True) metasim.run() self.assertTrue(metasim.is_file_exist(self.working_dir + "MetaSim_bint-Empirical.fna")) # test for an additional run: able to append subsequent versions? metasim.run() self.assertTrue(metasim.is_file_exist(self.working_dir + "MetaSim_bint-Empirical.1.fna")) metasim.run() self.assertTrue(metasim.is_file_exist(self.working_dir + "MetaSim_bint-Empirical.2.fna")) os.remove(self.working_dir + "MetaSim_bint-Empirical.fna") os.remove(self.working_dir + "MetaSim_bint-Empirical.1.fna") os.remove(self.working_dir + "MetaSim_bint-Empirical.2.fna")
def test_RunMetaSim_run(self): model_infile_var = "ErrorModelSolexa36bp.mconf" taxon_infile_var = "MetaSim_bint.mprf" outfile_var = "MetaSim_bint-Empirical" metasim = RunMetaSim(model_file=model_infile_var, no_reads=100, taxon_infile=taxon_infile_var, pdir=self.data_dir, wdir=self.working_dir, filename=outfile_var, check_exist=True) self.assertFalse(metasim.is_file_exist(self.working_dir + "test_outfile.fasta", False)) metasim.run(debug=True) # print "7777777", self.working_dir,outfile_var self.assertTrue(metasim.check_outfiles_with_filetag_exist(self.working_dir + outfile_var)) self.assertTrue(metasim.is_file_exist(self.working_dir + outfile_var + ".fna", True)) os.remove(self.working_dir + outfile_var + ".fna")