Esempi in Python per SampleSheetLinter.has_invalid_lines

Esempio n. 1

    def test_sample_sheet_without_invalid_lines(self):
        self.sample_sheet_without_invalid_lines = u"""[Data]
Lane,Sample_ID,Sample_Name,Sample_Plate,Sample_Well,I7_Index_ID,index,I5_Index_ID,index2,Sample_Project,Description
1,AB1,AB1,,,N701,CGATGTAT,N501,TCTTTCCC,Andrew_Bloggs,
1,AB2,AB2,,,N702,TGACCAAT,N502,TCTTTCCC,Andrew_Bloggs,
2,CD1,CD1,,,N701,CGATGTAT,N501,TCTTTCCC,Carl_Dewey,
2,FG2,FG2,,,N702,TGACCAAT,N502,TCTTTCCC,Filipe_Greer,
"""
        linter = SampleSheetLinter(
            fp=StringIO(self.sample_sheet_without_invalid_lines))
        self.assertFalse(linter.has_invalid_lines())

Esempio n. 2

File: test_samplesheet_utils.py Progetto: fls-bioinformatics-core/auto_process_ngs

    def test_sample_sheet_without_invalid_lines(self):
        self.sample_sheet_without_invalid_lines = """[Data]
Lane,Sample_ID,Sample_Name,Sample_Plate,Sample_Well,I7_Index_ID,index,I5_Index_ID,index2,Sample_Project,Description
1,AB1,AB1,,,N701,CGATGTAT,N501,TCTTTCCC,Andrew_Bloggs,
1,AB2,AB2,,,N702,TGACCAAT,N502,TCTTTCCC,Andrew_Bloggs,
2,CD1,CD1,,,N701,CGATGTAT,N501,TCTTTCCC,Carl_Dewey,
2,FG2,FG2,,,N702,TGACCAAT,N502,TCTTTCCC,Filipe_Greer,
"""
        linter = SampleSheetLinter(fp=cStringIO.StringIO(
            self.sample_sheet_without_invalid_lines))
        self.assertFalse(linter.has_invalid_lines())

Esempio n. 3

File: test_samplesheet_utils.py Progetto: zacapte/auto_process_ngs

    def test_sample_sheet_with_invalid_lines_no_lane(self):
        self.sample_sheet_with_invalid_lines_no_lane = """[Data]
Sample_ID,Sample_Name,Sample_Plate,Sample_Well,I7_Index_ID,index,I5_Index_ID,index2,Sample_Project,Description
AB1,AB1,,,N701,CGATGTAT,N501,TCTTTCCC,Andrew_Bloggs,
AB2,AB2,,,N702,TGACCAAT,N502,TCTTTCCC,Andrew_Bloggs,
CD1,CD1,,,N701,CGATGTAT,N501,TCTTTCCC,Carl_Dewey,
FG2,FG2,,,N702,TGACCAAT,N502,TCTTTCCC,Filipe_Greer,
,,,,,,,,Filipe_Greer,
,,,,,,,,Filipe_Greer,
"""
        linter = SampleSheetLinter(fp=cStringIO.StringIO(
            self.sample_sheet_with_invalid_lines_no_lane))
        self.assertTrue(linter.has_invalid_lines())