Major Description
I noticed this after testing recent work on monitor transforms in the UI. The simulation actually completes (and the resulting time series object is in the DB correctly, can be visualized), but the post-adapter code fails on the time series object in the persist_full_metadata method. Here's the relevant operations log
2015-06-24 13:43:10,303 - DEBUG [proc:2768] - tvb.adapters.simulator.simulator_adapter - <tvb.adapters.simulator.simulator_adapter.SimulatorAdapter object at 0x10ba28750>: Simulation state persisted, returning results
2015-06-24 13:43:10,307 - INFO [proc:2768] - tvb.adapters.simulator.simulator_adapter - <tvb.adapters.simulator.simulator_adapter.SimulatorAdapter object at 0x10ba28750>: Adapter simulation finished!!
2015-06-24 13:43:10,339 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - We will store entity of type: TimeSeriesRegion with id None
2015-06-24 13:43:10,374 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - After commit TimeSeriesRegion ID is 17
2015-06-24 13:43:10,538 - ERROR [proc:2768] - tvb.core.services.operation_service - Could not launch Operation with the given input data!
2015-06-24 13:43:10,538 - ERROR [proc:2768] - tvb.core.services.operation_service - Instance <TimeSeriesRegion at 0x10ba28a10> is not bound to a Session; attribute refresh operation cannot proceed
Traceback (most recent call last):
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/services/operation_service.py", line 337, in initiate_prelaunch
result_msg, nr_datatypes = adapter_instance._prelaunch(operation, unique_id, available_space, **params)
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/adapters/abcadapter.py", line 92, in new_function
return func(*args, **kw)
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/adapters/abcadapter.py", line 292, in _prelaunch
return self._capture_operation_results(result, uid)
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/adapters/abcadapter.py", line 338, in _capture_operation_results
res.persist_full_metadata()
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/traits/types_mapped.py", line 344, in persist_full_metadata
meta_dictionary[capitalized_name] = getattr(self, str(attr))
File "/anaconda/envs/tvb-dev/lib/python2.7/site-packages/sqlalchemy/orm/attributes.py", line 237, in _get_
return self.impl.get(instance_state(instance), dict_)
File "/anaconda/envs/tvb-dev/lib/python2.7/site-packages/sqlalchemy/orm/attributes.py", line 573, in get
value = state._load_expired(state, passive)
File "/anaconda/envs/tvb-dev/lib/python2.7/site-packages/sqlalchemy/orm/state.py", line 480, in _load_expired
self.manager.deferred_scalar_loader(self, toload)
File "/anaconda/envs/tvb-dev/lib/python2.7/site-packages/sqlalchemy/orm/loading.py", line 608, in load_scalar_attributes
(state_str(state)))
DetachedInstanceError: Instance <TimeSeriesRegion at 0x10ba28a10> is not bound to a Session; attribute refresh operation cannot proceed
2015-06-24 13:43:10,540 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - We will store entity of type: Operation with id 11
2015-06-24 13:43:10,552 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - After commit Operation ID is 11
2015-06-24 13:43:10,580 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - No step found for workflow_id=5 and step_index=1
2015-06-24 13:43:10,619 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - We will store entity of type: BurstConfiguration with id 5
2015-06-24 13:43:10,631 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - After commit BurstConfiguration ID is 5
2015-06-24 13:43:10,633 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - We will store entity of type: BurstConfiguration with id 5
2015-06-24 13:43:10,638 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - After commit BurstConfiguration ID is 5
2015-06-24 13:43:10,641 - ERROR [proc:2768] - tvb.core.operation_async_launcher - Could not execute operation 11
2015-06-24 13:43:10,641 - ERROR [proc:2768] - tvb.core.operation_async_launcher - Instance <TimeSeriesRegion at 0x10ba28a10> is not bound to a Session; attribute refresh operation cannot proceed
Traceback (most recent call last):
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/operation_async_launcher.py", line 81, in do_operation_launch
OperationService().initiate_prelaunch(curent_operation, adapter_instance, {}, **PARAMS)
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/services/operation_service.py", line 359, in initiate_prelaunch
self._handle_exception(excep1, temp_files, msg, operation)
File "/Users/MW/Documents/TVB/TVB/framework_tvb/tvb/core/services/operation_service.py", line 411, in _handle_exception
raise exception
DetachedInstanceError: Instance <TimeSeriesRegion at 0x10ba28a10> is not bound to a Session; attribute refresh operation cannot proceed
2015-06-24 13:43:10,665 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - We will store entity of type: BurstConfiguration with id 5
2015-06-24 13:43:10,674 - DEBUG [proc:2768] - tvb.core.entities.storage.root_dao - After commit BurstConfiguration ID is 5
I added the following to the beginning of MappedType.persist_full_metadata as a workaround:
from sqlalchemy.orm.exc import DetachedInstanceError
try:
self.create_date
except DetachedInstanceError as exc:
self.logger.info('ignoring %r on %r', exc, self)
return
Rerunning UI with this, and simulations complete correctly, so I'm committing to SVN to unblock Tim's work on the epilepsy tutorial, but this should be addressed.
