def loadJobStore( jobStoreString, config=None ):
"""
Loads a jobStore.
:param jobStoreString: see exception message below
:param config: see AbstractJobStore.__init__
:return: an instance of a concrete subclass of AbstractJobStore
:rtype: jobStores.abstractJobStore.AbstractJobStore
"""
if jobStoreString[ 0 ] in '/.':
jobStoreString = 'file:' + jobStoreString
try:
jobStoreName, jobStoreArgs = jobStoreString.split( ':', 1 )
except ValueError:
raise RuntimeError(
'Job store string must either be a path starting in . or / or a contain at least one '
'colon separating the name of the job store implementation from an initialization '
'string specific to that job store. If a path starting in . or / is passed, the file '
'job store will be used for backwards compatibility.' )
if jobStoreName == 'file':
from toil.jobStores.fileJobStore import FileJobStore
return FileJobStore( jobStoreArgs, config=config )
elif jobStoreName == 'aws':
from toil.jobStores.aws.jobStore import AWSJobStore
return AWSJobStore.createJobStore( jobStoreArgs, config=config )
elif jobStoreName == 'azure':
from toil.jobStores.azureJobStore import AzureJobStore
account, namePrefix = jobStoreArgs.split( ':', 1 )
return AzureJobStore( account, namePrefix, config=config )
else:
raise RuntimeError( "Unknown job store implementation '%s'" % jobStoreName )
def _createJobStore(self, config=None):
from toil.jobStores.aws.jobStore import AWSJobStore
partSize = self._partSize()
for encrypted in (True, False):
self.assertTrue(AWSJobStore.FileInfo.maxInlinedSize(encrypted) < partSize)
AWSJobStore.FileInfo.s3PartSize = partSize
return AWSJobStore.createJobStore(self.testRegion + ':' + self.namePrefix, config=config)
def loadJobStore(jobStoreString, config=None):
"""
Loads a jobStore.
:param jobStoreString: see exception message below
:param config: see AbstractJobStore.__init__
:return: an instance of a concrete subclass of AbstractJobStore
:rtype: jobStores.abstractJobStore.AbstractJobStore
"""
if jobStoreString[0] in '/.':
jobStoreString = 'file:' + jobStoreString
try:
jobStoreName, jobStoreArgs = jobStoreString.split(':', 1)
except ValueError:
raise RuntimeError(
'Job store string must either be a path starting in . or / or a contain at least one '
'colon separating the name of the job store implementation from an initialization '
'string specific to that job store. If a path starting in . or / is passed, the file '
'job store will be used for backwards compatibility.')
if jobStoreName == 'file':
from toil.jobStores.fileJobStore import FileJobStore
return FileJobStore(jobStoreArgs, config=config)
elif jobStoreName == 'aws':
from toil.jobStores.aws.jobStore import AWSJobStore
return AWSJobStore.createJobStore(jobStoreArgs, config=config)
elif jobStoreName == 'azure':
from toil.jobStores.azureJobStore import AzureJobStore
account, namePrefix = jobStoreArgs.split(':', 1)
return AzureJobStore(account, namePrefix, config=config)
else:
raise RuntimeError("Unknown job store implementation '%s'" %
jobStoreName)
def _createJobStore(self, config=None):
from toil.jobStores.aws.jobStore import AWSJobStore
partSize = self._partSize()
for encrypted in (True, False):
self.assertTrue(
AWSJobStore.FileInfo.maxInlinedSize(encrypted) < partSize)
AWSJobStore.FileInfo.s3PartSize = partSize
return AWSJobStore.createJobStore(self.testRegion + ':' +
self.namePrefix,
config=config)
