tools¶

class overture_song.tools.BatchUploader(server_url, access_token, payload_dir, debug=False)[source]¶

Bases: object

get_all_files()[source]¶

get_file(study_id, filename)[source]¶

get_files(study_id)[source]¶

get_studies()[source]¶

print_upload_states()[source]¶

publish_all()[source]¶

save_all()[source]¶

status_all()[source]¶

upload_all()[source]¶

class overture_song.tools.FileUploadClient(api, filename, is_async_validation=False, ignore_analysis_id_collisions=False)[source]¶

Bases: object

publish()[source]¶

save()[source]¶

update_status()[source]¶

upload()[source]¶

class overture_song.tools.FileUploadState[source]¶

Bases: enum.Enum

An enumeration.

NOT_UPLOADED = 0¶

PUBLISHED = 4¶

PUBLISH_ERROR = -2¶

SAVED = 3¶

SAVE_ERROR = -3¶

STATUS_ERROR = -5¶

SUBMITTED = 1¶

UNKNOWN_ERROR = -1¶

UPLOAD_ERROR = -6¶

VALIDATED = 2¶

VALIDATION_ERROR = -4¶

class overture_song.tools.SimplePayloadBuilder(donor: Type[overture_song.entities.Donor], specimen: Type[overture_song.entities.Specimen], sample: Type[overture_song.entities.Sample], files: List[overture_song.entities.File], experiment: object, analysisId: str = None)[source]¶

Bases: object

analysisId = None¶

to_dict()[source]¶