Python fastq_screen Examples

Example #1

File: test_report_qc.py Project: wenjingk/scilifelab

 def test_fqscreen(self):
     """Test fastq screen summary"""
     data = fastq_screen(project_name=self.examples["project"],
                         flowcell=self.examples["flowcell"].split("_")[-1],
                         username=self.user,
                         password=self.pw,
                         dbname="samples-test",
                         url=self.url)
     self.assertEqual(len(data['stdout'].getvalue().split()), 2)

Example #2

File: deliver.py Project: vals/scilifelab

 def fqscreen(self):
     if not self._check_pargs(["project_name"]):
         return
     out_data = fastq_screen(**vars(self.pargs))
     self.app._output_data['stdout'].write(out_data['stdout'].getvalue())
     self.app._output_data['stderr'].write(out_data['stderr'].getvalue())

Example #3

File: deliver.py Project: guillermo-carrasco/scilifelab

 def fqscreen(self):
     if not self._check_pargs(["project_name"]):
         return
     out_data = fastq_screen(**vars(self.pargs))
     self.app._output_data['stdout'].write(out_data['stdout'].getvalue())
     self.app._output_data['stderr'].write(out_data['stderr'].getvalue())

Example #4

File: test_report_qc.py Project: Galithil/scilifelab

 def test_fqscreen(self):
     """Test fastq screen summary"""
     data = fastq_screen(project_name=self.examples["project"], flowcell=self.examples["flowcell"].split("_")[-1], username=self.user, password=self.pw, dbname="samples-test", url=self.url)
     self.assertEqual(len(data['stdout'].getvalue().split()), 2)