def test_validate_group_script_dir(self): group_name = 'ENCODE-DCC' script_group_dir = get_script_group_dir(group_name, base_dir=self.test_content_dir) validate_content( [str(script_group_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_project_script_dir(self): group_name = 'ENCODE-DCC' project_name = 'atac-seq-pipeline' script_project_dir = get_script_project_dir( group_name, project_name, base_dir=self.test_content_dir) validate_content( [str(script_project_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_common_dir(self): tool_name = 'md5sum' version_name = '8.x' common_dir = get_tool_common_dir(tool_name, version_name, base_dir=self.test_content_dir) validate_content( [str(common_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_tool_version_dir(self): tool_name = 'samtools' version_name = '1.x' tool_version_dir = get_tool_version_dir(tool_name, version_name, base_dir=self.test_content_dir) validate_content( [str(tool_version_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_instance_dir(self): tool_name = 'gawk' version_name = '4.1.x' subtool_name = None instances_dir = get_tool_instances_dir(tool_name, version_name, subtool_name=subtool_name, base_dir=self.test_content_dir) validate_content( [str(instances_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_main_subtool_dir(self): tool_name = 'md5sum' version_name = '8.x' subtool_name = None subtool_dir = get_tool_dir(tool_name, version_name, subtool_name, base_dir=self.test_content_dir) validate_content( [str(subtool_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_script_dir(self): group_name = 'ENCODE-DCC' project_name = 'atac-seq-pipeline' version_name = '1.1.x' script_name = 'encode_ataqc' script_dir = get_script_dir(group_name, project_name, version_name, script_name, base_dir=self.test_content_dir) validate_content( [str(script_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_script_instance_dir(self): group_name = 'ENCODE-DCC' project_name = 'atac-seq-pipeline' version_name = '1.1.x' script_name = 'encode_bam2ta' # No instances in there, but might as well have a test. script_instance_dir = get_script_instance_dir( group_name, project_name, version_name, script_name, base_dir=self.test_content_dir) validate_content( [str(script_instance_dir), '-p', str(self.test_content_dir), '-q']) return
def test_validate_main_tool_dir(self): tool_name = 'STAR' test_repo_path = self.test_content_dir main_tool_dir = get_main_tool_dir(tool_name, base_dir=test_repo_path) validate_content([str(main_tool_dir), '-p', str(test_repo_path), '-q']) return