dyf

import json
from allensdk.core.structure_tree import StructureTree

file_name = "C:/Users/davidf/Downloads/mouse-brain-ontology.json"
structures = json.load(open(file_name,'r'))

# workaround for a bug in StructureTree.clean_structures that I just found
for s in structures:
    s['id'] = int(s['id'])
    s['structure_sets'] = []

dyf

from allensdk.core.mouse_connectivity_cache import MouseConnectivityCache

# pick from 10, 25, 50, 100 for resolution
mcc = MouseConnectivityCache(manifest_file='mcc/manifest.json', resolution=10)

# careful, these will get read into memory
av, _ = mcc.get_annotation_volume()
tv, _ = mcc.get_template_volume()

dyf

from allensdk.config import enable_console_log
from allensdk.api.queries.rma_api import RmaApi
from allensdk.api.queries.image_download_api import ImageDownloadApi

# print download messages to your console
enable_console_log()

# instantiate api classes for downloading metadata/images
image_api = ImageDownloadApi()
rma_api = RmaApi()

dyf

import csv

def hex_str_to_rgb(hex_str):
    """ convert a hex string (e.g. "FFFFFF") to an RGB dictionary """
    val = int(hex_str, 16)
    return { 
        'r': val & 0x0000ff,
        'g': (val & 0x00ff00) >> 8,
        'b': val >> 16
        }