def launch(self, data_file):
"""
Execute import operations: unpack ZIP, build and store generic DataType objects.
:param data_file: an archive (ZIP / HDF5) containing the `DataType`
:raises LaunchException: when data_file is None, nonexistent, or invalid \
(e.g. incomplete meta-data, not in ZIP / HDF5 format etc. )
"""
if data_file is None:
raise LaunchException(
"Please select file which contains data to import")
if os.path.exists(data_file):
if zipfile.is_zipfile(data_file):
current_op = dao.get_operation_by_id(self.operation_id)
# Creates a new TMP folder where to extract data
tmp_folder = os.path.join(self.storage_path, "tmp_import")
FilesHelper().unpack_zip(data_file, tmp_folder)
operations = ImportService().import_project_operations(
current_op.project, self.storage_path)
shutil.rmtree(tmp_folder)
self.nr_of_datatypes += len(operations)
else:
# upgrade file if necessary
file_update_manager = FilesUpdateManager()
file_update_manager.upgrade_file(data_file)
folder, h5file = os.path.split(data_file)
manager = HDF5StorageManager(folder, h5file)
if manager.is_valid_hdf5_file():
datatype = None
try:
service = ImportService()
datatype = service.load_datatype_from_file(
folder,
h5file,
self.operation_id,
final_storage=self.storage_path)
service.store_datatype(datatype)
self.nr_of_datatypes += 1
except Exception as excep:
# If import operation failed delete file from disk.
if datatype is not None and os.path.exists(
datatype.get_storage_file_path()):
os.remove(datatype.get_storage_file_path())
self.log.exception(excep)
raise LaunchException(
"Invalid file received as input. Most probably incomplete "
"meta-data ... " + str(excep))
else:
raise LaunchException(
"Uploaded file: %s is neither in ZIP or HDF5 format" %
data_file)
else:
raise LaunchException("File: %s to import does not exists." %
data_file)
def launch(self, view_model):
# type: (TVBImporterModel) -> []
"""
Execute import operations: unpack ZIP, build and store generic DataType objects.
:raises LaunchException: when data_file is None, nonexistent, or invalid \
(e.g. incomplete meta-data, not in ZIP / HDF5 format etc. )
"""
if view_model.data_file is None:
raise LaunchException(
"Please select file which contains data to import")
service = ImportService()
if os.path.exists(view_model.data_file):
if zipfile.is_zipfile(view_model.data_file):
current_op = dao.get_operation_by_id(self.operation_id)
# Creates a new TMP folder where to extract data
tmp_folder = os.path.join(self.storage_path, "tmp_import")
FilesHelper().unpack_zip(view_model.data_file, tmp_folder)
operations = service.import_project_operations(
current_op.project, tmp_folder)
shutil.rmtree(tmp_folder)
self.nr_of_datatypes += len(operations)
else:
# upgrade file if necessary
file_update_manager = FilesUpdateManager()
file_update_manager.upgrade_file(view_model.data_file)
folder, h5file = os.path.split(view_model.data_file)
manager = HDF5StorageManager(folder, h5file)
if manager.is_valid_hdf5_file():
datatype = None
try:
datatype = service.load_datatype_from_file(
view_model.data_file, self.operation_id)
service.check_import_references(
view_model.data_file, datatype)
service.store_datatype(datatype, view_model.data_file)
self.nr_of_datatypes += 1
except ImportException as excep:
self.log.exception(excep)
if datatype is not None:
target_path = h5.path_for_stored_index(datatype)
if os.path.exists(target_path):
os.remove(target_path)
raise LaunchException(
"Invalid file received as input. " + str(excep))
else:
raise LaunchException(
"Uploaded file: %s is neither in ZIP or HDF5 format" %
view_model.data_file)
else:
raise LaunchException("File: %s to import does not exists." %
view_model.data_file)
def launch(self, data_file):
"""
Execute import operations: unpack ZIP, build and store generic DataType objects.
:param data_file: an archive (ZIP / HDF5) containing the `DataType`
:raises LaunchException: when data_file is None, nonexistent, or invalid \
(e.g. incomplete meta-data, not in ZIP / HDF5 format etc. )
"""
if data_file is None:
raise LaunchException("Please select file which contains data to import")
if os.path.exists(data_file):
if zipfile.is_zipfile(data_file):
current_op = dao.get_operation_by_id(self.operation_id)
# Creates a new TMP folder where to extract data
tmp_folder = os.path.join(self.storage_path, "tmp_import")
FilesHelper().unpack_zip(data_file, tmp_folder)
operations = ImportService().import_project_operations(current_op.project, self.storage_path)
shutil.rmtree(tmp_folder)
self.nr_of_datatypes += len(operations)
else:
# upgrade file if necessary
file_update_manager = FilesUpdateManager()
file_update_manager.upgrade_file(data_file)
folder, h5file = os.path.split(data_file)
manager = HDF5StorageManager(folder, h5file)
if manager.is_valid_hdf5_file():
datatype = None
try:
service = ImportService()
datatype = service.load_datatype_from_file(folder, h5file, self.operation_id)
service.store_datatype(datatype)
self.nr_of_datatypes += 1
except Exception as excep:
# If import operation failed delete file from disk.
if datatype is not None and os.path.exists(datatype.get_storage_file_path()):
os.remove(datatype.get_storage_file_path())
self.log.exception(excep)
raise LaunchException("Invalid file received as input. Most probably incomplete "
"meta-data ... " + str(excep))
else:
raise LaunchException("Uploaded file: %s is neither in ZIP or HDF5 format" % data_file)
else:
raise LaunchException("File: %s to import does not exists." % data_file)
