def store(self, with_transaction=True):
"""
Store a new node in the DB, also saving its repository directory
and attributes.
After being called attributes cannot be
changed anymore! Instead, extras can be changed only AFTER calling
this store() function.
:note: After successful storage, those links that are in the cache, and
for which also the parent node is already stored, will be
automatically stored. The others will remain unstored.
:parameter with_transaction: if False, no transaction is used. This
is meant to be used ONLY if the outer calling function has already
a transaction open!
"""
from aiida.backends.sqlalchemy import get_scoped_session
session = get_scoped_session()
# TODO: This needs to be generalized, allowing for flexible methods
# for storing data and its attributes.
if self._to_be_stored:
self._validate()
self._check_are_parents_stored()
# I save the corresponding django entry
# I set the folder
# NOTE: I first store the files, then only if this is successful,
# I store the DB entry. In this way,
# I assume that if a node exists in the DB, its folder is in place.
# On the other hand, periodically the user might need to run some
# bookkeeping utility to check for lone folders.
self._repository_folder.replace_with_folder(
self._get_temp_folder().abspath, move=True, overwrite=True)
# import aiida.backends.sqlalchemy
try:
# aiida.backends.sqlalchemy.get_scoped_session().add(self._dbnode)
session.add(self._dbnode)
# Save its attributes 'manually' without incrementing
# the version for each add.
self.dbnode.attributes = self._attrs_cache
flag_modified(self.dbnode, "attributes")
# This should not be used anymore: I delete it to
# possibly free memory
del self._attrs_cache
self._temp_folder = None
self._to_be_stored = False
# Here, I store those links that were in the cache and
# that are between stored nodes.
self._store_cached_input_links(with_transaction=False)
if with_transaction:
try:
# aiida.backends.sqlalchemy.get_scoped_session().commit()
session.commit()
except SQLAlchemyError as e:
#print "Cannot store the node. Original exception: {" \
# "}".format(e)
session.rollback()
raise
# This is one of the few cases where it is ok to do a 'global'
# except, also because I am re-raising the exception
except:
# I put back the files in the sandbox folder since the
# transaction did not succeed
self._get_temp_folder().replace_with_folder(
self._repository_folder.abspath, move=True, overwrite=True)
raise
# Set up autogrouping used be verdi run
autogroup = aiida.orm.autogroup.current_autogroup
grouptype = aiida.orm.autogroup.VERDIAUTOGROUP_TYPE
if autogroup is not None:
if not isinstance(autogroup, aiida.orm.autogroup.Autogroup):
raise ValidationError(
"current_autogroup is not an AiiDA Autogroup")
if autogroup.is_to_be_grouped(self):
group_name = autogroup.get_group_name()
if group_name is not None:
g = Group.get_or_create(name=group_name,
type_string=grouptype)[0]
g.add_nodes(self)
return self
def store(self, with_transaction=True):
"""
Store a new node in the DB, also saving its repository directory
and attributes.
After being called attributes cannot be
changed anymore! Instead, extras can be changed only AFTER calling
this store() function.
:note: After successful storage, those links that are in the cache, and
for which also the parent node is already stored, will be
automatically stored. The others will remain unstored.
:parameter with_transaction: if False, no transaction is used. This
is meant to be used ONLY if the outer calling function has already
a transaction open!
"""
# TODO: This needs to be generalized, allowing for flexible methods
# for storing data and its attributes.
from django.db import transaction
from aiida.common.utils import EmptyContextManager
from aiida.common.exceptions import ValidationError
from aiida.backends.djsite.db.models import DbAttribute
import aiida.orm.autogroup
if with_transaction:
context_man = transaction.commit_on_success()
else:
context_man = EmptyContextManager()
if self._to_be_stored:
# As a first thing, I check if the data is valid
self._validate()
# Verify that parents are already stored. Raises if this is not
# the case.
self._check_are_parents_stored()
# I save the corresponding django entry
# I set the folder
# NOTE: I first store the files, then only if this is successful,
# I store the DB entry. In this way,
# I assume that if a node exists in the DB, its folder is in place.
# On the other hand, periodically the user might need to run some
# bookkeeping utility to check for lone folders.
self._repository_folder.replace_with_folder(
self._get_temp_folder().abspath, move=True, overwrite=True)
# I do the transaction only during storage on DB to avoid timeout
# problems, especially with SQLite
try:
with context_man:
# Save the row
self._dbnode.save()
# Save its attributes 'manually' without incrementing
# the version for each add.
DbAttribute.reset_values_for_node(
self.dbnode,
attributes=self._attrs_cache,
with_transaction=False)
# This should not be used anymore: I delete it to
# possibly free memory
del self._attrs_cache
self._temp_folder = None
self._to_be_stored = False
# Here, I store those links that were in the cache and
# that are between stored nodes.
self._store_cached_input_links()
# This is one of the few cases where it is ok to do a 'global'
# except, also because I am re-raising the exception
except:
# I put back the files in the sandbox folder since the
# transaction did not succeed
self._get_temp_folder().replace_with_folder(
self._repository_folder.abspath, move=True, overwrite=True)
raise
# Set up autogrouping used be verdi run
autogroup = aiida.orm.autogroup.current_autogroup
grouptype = aiida.orm.autogroup.VERDIAUTOGROUP_TYPE
if autogroup is not None:
if not isinstance(autogroup, aiida.orm.autogroup.Autogroup):
raise ValidationError(
"current_autogroup is not an AiiDA Autogroup")
if autogroup.is_to_be_grouped(self):
group_name = autogroup.get_group_name()
if group_name is not None:
from aiida.orm import Group
g = Group.get_or_create(name=group_name,
type_string=grouptype)[0]
g.add_nodes(self)
# This is useful because in this way I can do
# n = Node().store()
return self