Files OMICS

Data controller Practically unchanged from the original code in biomed-client library. Methods renamed from data to files, and some minor changes in the code to adapt it to use a single file-service. Merged with the original separated tools.py file from the same directory into the same file.

class genomcore.controllers.omics_files.OmicsFilesController(*args, **kwargs)

Bases: FilesController

Data controller to interact with omics-related data section of the API

PENDING = 'Pending'

PROCESSING = 'Processing'

COMPLETED = 'Completed'

FAILED = 'Failed'

copy_to_omics_bucket(iddata: str, task_id: str) → str

Copy files to the omics bucket on taskId folder.

Parameters:

• iddata (str) – iddata of a file or folder to copy to the omics bucket.

• task_id (str) – task ID to make a URI for the file in the omics bucket.

get_copy_omics_status(trackingUrl: str) → str

Get omics status when copying files to the omics bucket. Available status are: - Pending: Waiting for the copy to start - Processing: Copying files to the omics bucket - Completed: Files already copied - Failed: Some problems were found while copying files. This will raise a BiomedClientError with the reason

Parameters:

trackingUrl (str) – tracking URL to call in order to get the status of the copy to omics bucket.

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__firstlineno__ = 48

__static_attributes__ = ()