Esempi in Python per SamtoolsIdxstatsCommandline

Esempio n. 1

File: test_samtools_tool.py Progetto: sgalpha01/biopython

 def test_idxstats(self):
     self.create_bam_index(self.bamfile1)
     cmdline = SamtoolsIdxstatsCommandline(samtools_exe)
     cmdline.set_parameter("input_bam", self.bamfile1)
     stdout, stderr = cmdline()
     self.assertFalse(
         stderr, f"Samtools idxstats failed:\n{cmdline}\nStderr:{stderr}")

Esempio n. 2

File: test_samtools_tool.py Progetto: MCalvi/biopython

 def test_idxstats(self):
     self.test_index()
     cmdline = SamtoolsIdxstatsCommandline(samtools_exe)
     cmdline.set_parameter("input_bam", self.bamfile1)
     stdout, stderr = cmdline()
     self.assertFalse(stderr,
                      "Samtools idxstats failed:\n%s\nStderr:%s"
                      % (cmdline, stderr))

Esempio n. 3

 def test_idxstats(self):
     self.test_index()
     cmdline = SamtoolsIdxstatsCommandline(samtools_exe)
     cmdline.set_parameter("input_bam", self.bamfile1)
     stdout, stderr = cmdline()
     self.assertFalse(
         stderr,
         "Samtools idxstats failed:\n%s\nStderr:%s" % (cmdline, stderr))