Source code for tvb.core.entities.file.file_update_scripts.003_update_files
# -*- coding: utf-8 -*-
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"""
Upgrade script from H5 version 2 to version 3
.. moduleauthor:: Lia Domide <lia.domide@codemart.ro>
.. creationdate:: beginning of 2015
"""
import os
from tvb.basic.profile import TvbProfile
from tvb.core.entities.transient.structure_entities import DataTypeMetaData
from tvb.core.services.import_service import ImportService
from tvb.storage.h5.file.exceptions import FileVersioningException
from tvb.storage.storage_interface import StorageInterface
[docs]def update(input_file, burst_match_dict=None):
"""
In order to avoid segmentation faults when updating a batch of files just
start every conversion on a different Python process.
:param input_file: the file that needs to be converted to a newer file storage version.
This should be a file that still uses TVB 2.0 storage
"""
if not os.path.isfile(input_file):
raise FileVersioningException("The input path %s received for upgrading from 2 -> 3 is not a "
"valid file on the disk." % input_file)
folder, file_name = os.path.split(input_file)
storage_manager = StorageInterface.get_storage_manager(input_file)
root_metadata = storage_interface.get_metadata(input_file)
class_name = root_metadata[DataTypeMetaData.KEY_CLASS_NAME]
if class_name == "LocalConnectivity":
root_metadata[DataTypeMetaData.KEY_MODULE] = "tvb.datatypes.local_connectivity"
storage_interface.set_metadata(input_file, root_metadata)
update_localconnectivity_metadata(folder, file_name)
elif class_name == "RegionMapping":
root_metadata[DataTypeMetaData.KEY_MODULE] = "tvb.datatypes.region_mapping"
root_metadata[TvbProfile.current.version.DATA_VERSION_ATTRIBUTE] = TvbProfile.current.version.DATA_VERSION
storage_interface.set_metadata(input_file, root_metadata)