def create_project(self, version):
"""Create a new project."""
sys.stdout.write(
" ___ _______ ___ __ _\n"
" / _ \\/ __/ _ | / _ \\___ __ _ ___ / /_(_)__ ___\n"
" / , _/ _// __ |/ // / -_) ' \\/ _ \\/ __/ / _ \\/ _ \\\n"
"/_/|_/___/_/ |_/____/\\__/_/_/_/ .__/\\__/_/\\___/_//_/\n"
" / /\n"
"====================================================\n"
"========================================\n"
"=======================\n"
"==============\n\n"
"[https://reademption.readthedocs.io/en/latest/]\n\n")
project_creator = ProjectCreator()
project_creator.create_root_folder(self._args.project_path)
project_creator.create_subfolders(self._paths.required_folders())
project_creator.create_version_file(self._paths.version_path, version)
sys.stdout.write('Created folder "%s" and required subfolders.\n' %
(self._args.project_path))
sys.stdout.write(
'Please copy read files into folder "%s" and '
'reference sequences files into folder "%s".\n' %
(self._paths.read_fasta_folder, self._paths.ref_seq_folder))
def test_project_creator():
# Import Object & define dummy project name
root_folder_name = "a_test_project"
projectcreator = ProjectCreator()
# Test root folder creation
projectcreator.create_root_folder(root_folder_name)
assert os.path.exists(root_folder_name)
shutil.rmtree(root_folder_name)
# Test subfolder creation
projectcreator.create_root_folder(root_folder_name)
subfolders = ["test_a", "test_b", "test_c"]
subfolders = [
root_folder_name + "/" + subfolder for subfolder in subfolders
]
projectcreator.create_subfolders(subfolders)
for subfolder in subfolders:
assert os.path.exists(subfolder)
# Check if dummy project exists & delete it
if os.path.exists(root_folder_name):
shutil.rmtree(root_folder_name)
def create_project(self, version):
"""Create a new project."""
sys.stdout.write(
" ___ _______ ___ __ _\n"
" / _ \/ __/ _ | / _ \___ __ _ ___ / /_(_)__ ___\n"
" / , _/ _// __ |/ // / -_) ' \/ _ \/ __/ / _ \/ _ \\\n"
"/_/|_/___/_/ |_/____/\__/_/_/_/ .__/\__/_/\___/_//_/\n"
" / /\n"
"====================================================\n"
"========================================\n"
"=======================\n"
"==============\n\n"
"[http://pythonhosted.org/READemption/]\n\n")
project_creator = ProjectCreator()
project_creator.create_root_folder(self._args.project_path)
project_creator.create_subfolders(self._paths.required_folders())
project_creator.create_version_file(self._paths.version_path, version)
sys.stdout.write("Created folder \"%s\" and required subfolders.\n" % (
self._args.project_path))
sys.stdout.write("Please copy read files into folder \"%s\" and "
"reference sequences files into folder \"%s\".\n" % (
self._paths.read_fasta_folder,
self._paths.ref_seq_folder))
def create_project(self, version):
"""Create a new project."""
sys.stdout.write(
" ___ _______ ___ __ _\n"
" / _ \/ __/ _ | / _ \___ __ _ ___ / /_(_)__ ___\n"
" / , _/ _// __ |/ // / -_) ' \/ _ \/ __/ / _ \/ _ \\\n"
"/_/|_/___/_/ |_/____/\__/_/_/_/ .__/\__/_/\___/_//_/\n"
" / /\n"
"====================================================\n"
"========================================\n"
"=======================\n"
"==============\n\n"
"[http://pythonhosted.org/READemption/]\n\n")
project_creator = ProjectCreator()
project_creator.create_root_folder(self._args.project_path)
project_creator.create_subfolders(self._paths.required_folders())
project_creator.create_version_file(self._paths.version_path, version)
sys.stdout.write("Created folder \"%s\" and required subfolders.\n" % (
self._args.project_path))
sys.stdout.write("Please copy read files into folder \"%s\" and "
"reference sequences files into folder \"%s\".\n" % (
self._paths.read_fasta_folder,
self._paths.ref_seq_folder))
class TestProjectCreator(unittest.TestCase):
def setUp(self):
self.root_folder_name = "a_test_project"
self.projectcreator = ProjectCreator()
def tearDown(self):
if os.path.exists(self.root_folder_name):
shutil.rmtree(self.root_folder_name)
def test_create_root_folder(self):
self.projectcreator.create_root_folder(self.root_folder_name)
assert (os.path.exists(self.root_folder_name))
shutil.rmtree(self.root_folder_name)
def test_create_subfolders(self):
self.projectcreator.create_root_folder(self.root_folder_name)
subfolders = ["test_a", "test_b", "test_c"]
subfolders = [
self.root_folder_name + "/" + subfolder for subfolder in subfolders
]
self.projectcreator.create_subfolders(subfolders)
for subfolder in subfolders:
assert (os.path.exists(subfolder))
class TestProjectCreator(unittest.TestCase):
def setUp(self):
self.root_folder_name = "a_test_project"
self.projectcreator = ProjectCreator()
def tearDown(self):
if os.path.exists(self.root_folder_name):
shutil.rmtree(self.root_folder_name)
def test_create_root_folder(self):
self.projectcreator.create_root_folder(self.root_folder_name)
assert(os.path.exists(self.root_folder_name))
shutil.rmtree(self.root_folder_name)
def test_create_subfolders(self):
self.projectcreator.create_root_folder(self.root_folder_name)
subfolders = ["test_a", "test_b", "test_c"]
subfolders = [self.root_folder_name + "/" + subfolder for
subfolder in subfolders]
self.projectcreator.create_subfolders(subfolders)
for subfolder in subfolders:
assert(os.path.exists(subfolder))
def setUp(self):
self.root_folder_name = "a_test_project"
self.projectcreator = ProjectCreator()
def setUp(self):
self.root_folder_name = "a_test_project"
self.projectcreator = ProjectCreator()
