def test_zz_quickstart_usage(self):
import json
import httplib
import numpy
from pydvid import voxels, general
# Open a connection to DVID
connection = httplib.HTTPConnection( "localhost:8000", timeout=5.0 )
# Get detailed dataset info: /api/datasets/info
dataset_details = general.get_repos_info( connection )
# print json.dumps( dataset_details, indent=4 )
# Create a new remote volume
uuid = 'abcde'
voxels_metadata = voxels.VoxelsMetadata.create_default_metadata( (4,0,0,0), numpy.uint8, 'cxyz', 1.0, "" )
voxels.create_new( connection, uuid, "my_volume", voxels_metadata )
# Use the VoxelsAccessor convenience class to manipulate a particular data volume
dvid_volume = voxels.VoxelsAccessor( connection, uuid, "my_volume" )
# print dvid_volume.axiskeys, dvid_volume.dtype, dvid_volume.minindex, dvid_volume.shape
# Add some data
updated_data = numpy.ones( (4,100,100,100), dtype=numpy.uint8 ) # Must include all channels.
dvid_volume[:, 10:110, 20:120, 30:130] = updated_data
# OR:
dvid_volume.post_ndarray( (0,10,20,30), (4,110,120,130), updated_data )
# Read from it (First axis is channel.)
cutout_array = dvid_volume[:, 10:110, 20:120, 30:130]
# OR:
cutout_array = dvid_volume.get_ndarray( (0,10,20,30), (4,110,120,130) )
assert isinstance(cutout_array, numpy.ndarray)
assert cutout_array.shape == (4,100,100,100)
def is_dataset_in_dvid(connection, uuid, dataset):
dataset_details = general.get_repos_info(connection)
for dataset_uuid in dataset_details.keys():
if dataset_uuid.startswith(uuid):
return dataset in dataset_details[dataset_uuid][
'DataInstances'].keys()
return False
def test_query_datasets_info(self):
info = general.get_repos_info( self.client_connection )
items = sorted(info.items())
first_item = items[0][1]
assert first_item["DAG"]["Root"] == "abcde"
assert first_item["DAG"]["Nodes"]["abcde"]["Parents"] == []
assert first_item["DAG"]["Nodes"]["abcde"]["Children"] == []
assert first_item["DataInstances"][self.data_name]["Base"]["Name"] == self.data_name
def test_query_datasets_info(self):
info = general.get_repos_info(self.client_connection)
items = sorted(info.items())
first_item = items[0][1]
assert first_item["DAG"]["Root"] == "abcde"
assert first_item["DAG"]["Nodes"]["abcde"]["Parents"] == []
assert first_item["DAG"]["Nodes"]["abcde"]["Children"] == []
assert first_item["DataInstances"][
self.data_name]["Base"]["Name"] == self.data_name
def test_zz_quickstart_usage(self):
import json
import httplib
import numpy
from pydvid import voxels, general
# Open a connection to DVID
connection = httplib.HTTPConnection("localhost:8000", timeout=5.0)
# Get detailed dataset info: /api/datasets/info
dataset_details = general.get_repos_info(connection)
# print json.dumps( dataset_details, indent=4 )
# Create a new remote volume
uuid = 'abcde'
voxels_metadata = voxels.VoxelsMetadata.create_default_metadata(
(4, 0, 0, 0), numpy.uint8, 'cxyz', 1.0, "")
voxels.create_new(connection, uuid, "my_volume", voxels_metadata)
# Use the VoxelsAccessor convenience class to manipulate a particular data volume
dvid_volume = voxels.VoxelsAccessor(connection, uuid, "my_volume")
# print dvid_volume.axiskeys, dvid_volume.dtype, dvid_volume.minindex, dvid_volume.shape
# Add some data
updated_data = numpy.ones(
(4, 100, 100, 100),
dtype=numpy.uint8) # Must include all channels.
dvid_volume[:, 10:110, 20:120, 30:130] = updated_data
# OR:
dvid_volume.post_ndarray((0, 10, 20, 30), (4, 110, 120, 130),
updated_data)
# Read from it (First axis is channel.)
cutout_array = dvid_volume[:, 10:110, 20:120, 30:130]
# OR:
cutout_array = dvid_volume.get_ndarray((0, 10, 20, 30),
(4, 110, 120, 130))
assert isinstance(cutout_array, numpy.ndarray)
assert cutout_array.shape == (4, 100, 100, 100)
import json
import httplib
import numpy
from pydvid import voxels, general
connection = httplib.HTTPConnection("localhost:8001", timeout=5.0)
# Get detailed dataset info: /api/datasets/info
dataset_details = general.get_repos_info(connection)
# print json.dumps( dataset_details, indent=4 )
# Create a new remote volume
uuid = "25eb4d877a0d4f8391014fe1237ada8a"
voxels_metadata = voxels.VoxelsMetadata.create_default_metadata(
(4, 0, 0, 0), numpy.uint8, "cxyz", 1.0, "")
# voxels.create_new( connection, uuid, "my_volume", voxels_metadata )
# Use the VoxelsAccessor convenience class to manipulate a particular data volume
dvid_volume = voxels.VoxelsAccessor(connection, uuid, "my_volume")
print(dvid_volume.axiskeys, dvid_volume.dtype, dvid_volume.minindex,
dvid_volume.shape)
# Add some data
updated_data = numpy.ones((4, 100, 100, 100),
dtype=numpy.uint8) # Must include all channels.
# dvid_volume[:, 10:110, 20:120, 30:130] = updated_data
# OR:
dvid_volume.post_ndarray((0, 10, 20, 30), (4, 110, 120, 130), updated_data)
# Read from it (First axis is channel.)
cutout_array = dvid_volume[:, 10:110, 20:120, 30:130]
# OR: