Batch Queuing

heudiconv.queue.clean_args(hargs, iterarg, iteridx)

Filters arguments for batch submission.

hargs: list

Command-line arguments

iterarg: str

Multi-argument to index (subjects OR files)

iteridx: int

iterarg index to submit

cmdargs : list

Filtered arguments for batch submission

>>> from heudiconv.queue import clean_args
>>> cmd = ['heudiconv', '-d', '/some/{subject}/path',
...                     '-q', 'SLURM',
...                     '-s', 'sub-1', 'sub-2', 'sub-3', 'sub-4']
>>> clean_args(cmd, 'subjects', 0)
['heudiconv', '-d', '/some/{subject}/path', '-s', 'sub-1']

heudiconv.queue.queue_conversion(queue, iterarg, iterables, queue_args=None)

Write out conversion arguments to file and submit to a job scheduler. Parses sys.argv for heudiconv arguments.

queue: string

Batch scheduler to use

iterarg: str

Multi-argument to index (subjects OR files)

iterables: int

Number of iterarg arguments

queue_args: string (optional)

Additional queue arguments for job submission