Esempi in Python per bwamem_idxstats

Esempio n. 1

File: test_read_utils.py Progetto: notestaff/viral-ngs

 def test_bwamem_idxstats_no_bam_output(self):
     inBam = os.path.join(util.file.get_test_input_path(), 'G5012.3.testreads.bam')
     outStats = util.file.mkstempfname('.stats.txt', directory=self.tempDir)
     read_utils.bwamem_idxstats(inBam, self.ebolaRef, None, outStats)
     with open(outStats, 'rt') as inf:
         actual_count = int(inf.readline().strip().split('\t')[2])
     self.assertGreater(actual_count, 18000)

Esempio n. 2

File: test_read_utils.py Progetto: broadinstitute/viral-ngs

 def test_bwamem_idxstats_no_bam_output(self):
     inBam = os.path.join(util.file.get_test_input_path(), 'G5012.3.testreads.bam')
     outStats = util.file.mkstempfname('.stats.txt', directory=self.tempDir)
     read_utils.bwamem_idxstats(inBam, self.ebolaRef, None, outStats)
     with open(outStats, 'rt') as inf:
         actual_count = int(inf.readline().strip().split('\t')[2])
     self.assertGreater(actual_count, 18000)