def test_transform_app(app):
Transform.to_app(app)
def create(cls,
name,
project,
app,
revision=None,
batch_input=None,
batch_by=None,
inputs=None,
description=None,
run=False,
disable_batch=False,
interruptible=True,
api=None):
"""
Creates a task on server.
:param name: Task name.
:param project: Project identifier.
:param app: CWL app identifier.
:param revision: CWL app revision.
:param batch_input: Batch input.
:param batch_by: Batch criteria.
:param inputs: Input map.
:param description: Task description.
:param run: True if you want to run a task upon creation.
:param disable_batch: If True disables batching of a batch task.
:param interruptible: If True interruptible instance will be used.
:param api: Api instance.
:return: Task object.
:raises: TaskValidationError if validation Fails.
:raises: SbgError if any exception occurs during request.
"""
task_data = {}
params = {}
project = Transform.to_project(project)
app_id = Transform.to_app(app)
if revision:
app_id = app_id + "/" + six.text_type(revision)
else:
if isinstance(app, App):
app_id = app_id + "/" + six.text_type(app.revision)
task_inputs = {
'inputs': Task._serialize_inputs(inputs) if inputs else {}
}
if batch_input and batch_by:
task_data['batch_input'] = batch_input
task_data['batch_by'] = batch_by
if disable_batch:
params.update({'batch': False})
task_meta = {
'name': name,
'project': project,
'app': app_id,
'description': description,
}
task_data.update(task_meta)
task_data.update(task_inputs)
task_data['use_interruptible_instances'] = interruptible
if run:
params.update({'action': 'run'})
api = api if api else cls._API
created_task = api.post(cls._URL['query'],
data=task_data,
params=params).json()
if run and 'errors' in created_task:
if bool(created_task['errors']):
raise TaskValidationError(
'Unable to run task! Task contains errors.',
task=Task(api=api, **created_task))
return Task(api=api, **created_task)
def create(cls,
name,
project,
app,
revision=None,
batch_input=None,
batch_by=None,
inputs=None,
description=None,
run=False,
api=None):
"""
Creates a task on server.
:param name: Task name.
:param project: Project identifier.
:param app: CWL app identifier.
:param revision: CWL app revision.
:param batch_input: Batch input.
:param batch_by: Batch criteria.
:param inputs: Input map.
:param description: Task description.
:param run: True if you want to run a task upon creation.
:param api: Api instance.
:return: Task object.
:raises: TaskValidationError if validation Fails.
:raises: SbgError if any exception occurs during request.
"""
task_data = {}
project = Transform.to_project(project)
app = Transform.to_app(app)
if revision:
app = app + "/" + six.text_type(revision)
task_inputs = {'inputs': {}}
for k, v in inputs.items():
if isinstance(v, File):
input = {
'class': 'File',
'path': v.id,
}
task_inputs['inputs'][k] = input
elif isinstance(v, list):
input_list = []
for inp in v:
if isinstance(inp, File):
input = {
'class': 'File',
'path': inp.id,
}
if inp.name:
input['name'] = inp.name
input_list.append(input)
else:
input_list.append(inp)
task_inputs['inputs'][k] = input_list
else:
task_inputs['inputs'][k] = v
if batch_input:
task_data['batch_input'] = batch_input
if batch_by:
task_data['batch_by'] = batch_by
task_meta = {
'name': name,
'project': project,
'app': app,
'description': description
}
task_data.update(task_meta)
task_data.update(task_inputs)
params = {'action': 'run'} if run else {}
api = api if api else cls._API
created_task = api.post(cls._URL['query'],
data=task_data,
params=params).json()
if run and 'errors' in created_task:
if bool(created_task['errors']):
raise TaskValidationError(
'Unable to run task! Task contains errors.',
task=Task(api=api, **created_task))
return Task(api=api, **created_task)
def create(cls, name, project, app, batch_input=None, batch_by=None,
inputs=None,
description=None, run=False, api=None):
"""
Creates a task on server.
:param name: Task name.
:param project: Project identifier.
:param app: CWL app identifier.
:param batch_input: Batch input.
:param batch_by: Batch criteria.
:param inputs: Input map.
:param description: Task description.
:param run: True if you want to run a task upon creation.
:param api: Api instance.
:return: Task object.
"""
task_data = {}
project = Transform.to_project(project)
app = Transform.to_app(app)
task_inputs = {'inputs': {}}
for k, v in inputs.items():
if isinstance(v, File):
input = {
'class': 'File',
'path': v.id,
}
task_inputs['inputs'][k] = input
elif isinstance(v, list):
input_list = []
for inp in v:
if isinstance(inp, File):
input = {
'class': 'File',
'path': inp.id,
}
if inp.name:
input['name'] = inp.name
input_list.append(input)
else:
input_list.append(inp)
task_inputs['inputs'][k] = input_list
else:
task_inputs['inputs'][k] = v
if batch_input:
task_data['batch_input'] = batch_input
if batch_by:
task_data['batch_by'] = batch_by
task_meta = {
'name': name,
'project': project,
'app': app,
'description': description
}
task_data.update(task_meta)
task_data.update(task_inputs)
params = {'action': 'run'} if run else {}
api = api if api else cls._API
created_task = api.post(cls._URL['query'], data=task_data,
params=params).json()
return Task(api=api, **created_task)
def test_transform_app(app):
Transform.to_app(app)
def create(cls,
name,
project,
app,
batch_input=None,
batch_by=None,
inputs=None,
description=None,
run=False,
api=None):
"""
Creates a task on server.
:param name: Task name.
:param project: Project identifier.
:param app: CWL app identifier.
:param batch_input: Batch input.
:param batch_by: Batch criteria.
:param inputs: Input map.
:param description: Task description.
:param run: True if you want to run a task upon creation.
:param api: Api instance.
:return: Task object.
"""
task_data = {}
project = Transform.to_project(project)
app = Transform.to_app(app)
task_inputs = {'inputs': {}}
for k, v in inputs.items():
if isinstance(v, File):
input = {
'class': 'File',
'path': v.id,
}
task_inputs['inputs'][k] = input
elif isinstance(v, list):
input_list = []
for inp in v:
if isinstance(inp, File):
input = {
'class': 'File',
'path': inp.id,
}
if inp.name:
input['name'] = inp.name
input_list.append(input)
else:
input_list.append(inp)
task_inputs['inputs'][k] = input_list
else:
task_inputs['inputs'][k] = v
if batch_input:
task_data['batch_input'] = batch_input
if batch_by:
task_data['batch_by'] = batch_by
task_meta = {
'name': name,
'project': project,
'app': app,
'description': description
}
task_data.update(task_meta)
task_data.update(task_inputs)
params = {'action': 'run'} if run else {}
api = api if api else cls._API
created_task = api.post(cls._URL['query'],
data=task_data,
params=params).json()
return Task(api=api, **created_task)
