bioimg.exportation

cloud.bioimg.exportation

Functions

Name Description
export The function exports microscopy images from TileDB arrays

export

cloud.bioimg.exportation.export(
    source,
    output,
    *args,
    access_credentials_name,
    config=None,
    taskgraph_name=None,
    num_batches=None,
    resources=None,
    compute=True,
    mode=Mode.BATCH,
    namespace=None,
    verbose=False,
    output_ext='tiff',
    **kwargs,
)

The function exports microscopy images from TileDB arrays

Parameters

Name Type Description Default
source Union[Sequence[str], str] uri / iterable of uris of input files If the uri points to a directory of files make sure it ends with a trailing ‘/’ required
output Union[Sequence[str], str] uri / iterable of uris of input files. If the uri points to a directory of files make sure it ends with a trailing ‘/’ required
config Optional[Mapping[str, Any]] dict configuration to pass credentials of the destination None
taskgraph_name Optional[str] Optional name for taskgraph, defaults to None None
num_batches Optional[int] Number of graph nodes to spawn. Performs it sequentially if default, defaults to 1 None
threads Number of threads for node side multiprocessing, defaults to 8 required
resources Optional[Mapping[str, Any]] configuration for node specs e.g. {“cpu”: “8”, “memory”: “4Gi”}, defaults to None None
compute bool When True the DAG returned will be computed inside the function otherwise DAG will only be returned. True
mode Optional[Mode] By default runs Mode.Batch Mode.BATCH
namespace Optional[str] The namespace where the DAG will run None
verbose bool verbose logging, defaults to False False
access_credentials_name str Access Credentials Name (ACN) registered in TileDB Cloud (ARN type) required
output_ext str extension for the output images in tiledb 'tiff'