def open_remote(url):
import zarr
from fsspec.implementations.http import HTTPFileSystem
fs = HTTPFileSystem()
mapper = fs.get_mapper(url)
ds = xr.open_zarr(mapper, consolidated=True).yaxit.as_binned()
return ds
def structure_mesh(allen_id):
if allen_id in _cache:
return _cache[allen_id]
fs = HTTPFileSystem()
# Todo: Use AWS store after Scott / Lydia upload
store = fs.get_mapper(
"https://thewtex.github.io/allen-ccf-itk-vtk-zarr/meshes/{0}.zarr".
format(allen_id))
root = zarr.open_consolidated(store)
mesh = zarr_to_vtkjs(root)
_cache[allen_id] = mesh
return mesh
import xarray as xr
import zarr
import urllib.request
import matplotlib.colors
from .structure_graph import acronym_to_allen_id, allen_id_to_acronym, structure_graph, allen_id_to_tree_node
from .allen_id_label import labels_for_allen_id
from .swc_morphology import swc_morphology_geometry
from .structure_mesh import structure_mesh
from IPython.core.debugger import set_trace
_image_fs = HTTPFileSystem()
# Todo: Use AWS store after Scott / Lydia upload
_image_store = _image_fs.get_mapper(
"https://thewtex.github.io/allen-ccf-itk-vtk-zarr/average_template_50_chunked.zarr"
)
_image_store_cached = zarr.LRUStoreCache(_image_store, max_size=None)
_image_ds = xr.open_zarr(_image_store_cached, consolidated=True)
_image_da = _image_ds.average_template_50
_label_image_fs = HTTPFileSystem()
# Todo: Use AWS store after Scott / Lydia upload
_label_image_store = _label_image_fs.get_mapper(
"https://thewtex.github.io/allen-ccf-itk-vtk-zarr/allen_ccfv3_annotation_50_contiguous.zarr"
)
_label_image_store_cached = zarr.LRUStoreCache(_label_image_store,
max_size=None)
_label_image_ds = xr.open_zarr(_label_image_store_cached, consolidated=True)
_label_image_da = _label_image_ds.allen_ccfv3_annotation