def setUp(self): # Make test directories self.empty_dir1 = TestUtils.make_dir() self.empty_dir2 = TestUtils.make_dir() self.dir1 = ExampleDirScooby() self.dir2 = ExampleDirScooby() self.dir1.create_directory() self.dir2.create_directory()
def setUp(self): # Make an example directory with sample files # structured as for SOLiD data self.d = TestUtils.make_dir() # Add files for f in SOLID_FILES.split(): TestUtils.make_file(f,"lorem ipsum",basedir=self.d) # Make an example QC dir self.qc_dir = TestUtils.make_sub_dir(self.d,'qc') for f in SOLID_QC_FILES.split(): TestUtils.make_file(f,"lorem ipsum",basedir=self.qc_dir)
def setUp(self): # Make an example directory with sample files # structured as for SOLiD data self.d = TestUtils.make_dir() # Add files for f in SOLID_FILES.split(): TestUtils.make_file(f, "lorem ipsum", basedir=self.d) # Make an example QC dir self.qc_dir = TestUtils.make_sub_dir(self.d, 'qc') for f in SOLID_QC_FILES.split(): TestUtils.make_file(f, "lorem ipsum", basedir=self.qc_dir)
def setUp(self): # Make an example directory with sample files # structured as for Illumina data self.d = TestUtils.make_dir() # Add fastq files self.fastq_dir = TestUtils.make_sub_dir(self.d,'fastqs') for f in ILLUMINA_FILES.split(): TestUtils.make_file(f,"lorem ipsum",basedir=self.fastq_dir) # Make an example QC dir self.qc_dir = TestUtils.make_sub_dir(self.d,'qc') for f in ILLUMINA_QC_FILES.split(): TestUtils.make_file(f,"lorem ipsum",basedir=self.qc_dir) for d in ILLUMINA_FASTQC_DIRS.split(): TestUtils.make_sub_dir(self.qc_dir,d)
def setUp(self): # Make an example directory with sample files # structured as for Illumina data self.d = TestUtils.make_dir() # Add fastq files self.fastq_dir = TestUtils.make_sub_dir(self.d, 'fastqs') for f in ILLUMINA_FILES.split(): TestUtils.make_file(f, "lorem ipsum", basedir=self.fastq_dir) # Make an example QC dir self.qc_dir = TestUtils.make_sub_dir(self.d, 'qc') for f in ILLUMINA_QC_FILES.split(): TestUtils.make_file(f, "lorem ipsum", basedir=self.qc_dir) for d in ILLUMINA_FASTQC_DIRS.split(): TestUtils.make_sub_dir(self.qc_dir, d)
def setUp(self): # Create working directory for test files etc self.wd = TestUtils.make_dir()