TileDB with Dask Array

TileDB integrates very well with dask.array. We demonstrate with an example below where attribute attr stores an int32 value per cell:
Python
Python
import dask
import dask.array as da
​
array = da.from_tiledb('s3://my-bucket/my-dense-array',
                        attribute='attr',
                        storage_options={'vfs.s3.aws_access_key_id': 'mykeyid',
                                         'vfs.s3.aws_secret_access_key': 'mysecret'})
print(array.mean().compute())
You can add any TileDB configuration parameter in storage_options. Moreover, storage_options accepts an additional key option, where you can pass an encryption key if your array is encrypted (see Encryption).
You can also set array chunking similar to Dask's chunking. For example, you can do the following:
Python
Python
import dask
import dask.array as da
​
array = da.from_tiledb('s3://my-bucket/my-dense-array',
                        attribute='attr',
                        chunks=10, # or chunks=(10,) 
                        storage_options={'vfs.s3.aws_access_key_id': 'mykeyid',
                                         'vfs.s3.aws_secret_access_key': 'mysecret'})
print(array.mean().compute())
You can also write a Dask array into TileDB as follows:
Python
Python
import tiledb
import numpy as np
import dask, dask.array as da
​
array = da.random.random((25,25))
​
array.to_tiledb("s3://my-bucket/my-uri", storage_options={'vfs.s3.aws_access_key_id': 'mykeyid',
                                      'vfs.s3.aws_secret_access_key': 'mysecret'})
Note that the TileDB array does not need to exist. The above function call will create it if it does not by inferring the schema from the Dask array. To write to an existing array, you should open the array for writing as follows:
Python
Python
import numpy as np
import dask, dask.array as da
​
array = da.random.random((25,25))
​
with tiledb.open(s3://my-bucket/my-uri, 'w') as A:
    array.to_tiledb(A)
 
Dask - Previous
Quickstart
Next - Dask
TileDB with Dask Delayed
Last updated 5 months ago