from intern.remote.boss import BossRemote
from intern.remote.dvid import DVIDRemote
from intern.resource.boss.resource import *
import matplotlib.pyplot as plt
import numpy as np
# Define the BOSS remote
rmt = BossRemote({"protocol": "https", "host": "api.bossdb.io", "token": "public"})
ANN_COLL_NAME = "allan_johnson"
ANN_EXP_NAME = "gaj_17_40"
experiment = rmt.get_experiment(ANN_COLL_NAME, ANN_EXP_NAME)
print("Boss experiment extents: {}".format(rmt.get_extents(experiment)))
# Define the DVID remote
dvid = DVIDRemote({"protocol": "https", "host": "emdata.janelia.org",})
uuid = "822524777d3048b8bd520043f90c1d28"
name = "grayscale"
annos_name = "groundtruth"
print(
"DVID data instance extents: {}".format(
dvid.get_extents(dvid.get_instance(uuid, name, datatype="uint8"))
)
)
from intern.remote.boss import BossRemote
from intern.resource.boss.resource import *
# admin token needed to list all projects
rmt = BossRemote("/home/ben/Documents/travis_user_neurodata.cfg")
with open("public_datasets.csv", "w") as f:
f.write(
"coll,exp,ch,exp_description,num_hierarchy_levels,dtype,x_start,x_stop,y_start,y_stop,z_start,z_stop\n"
)
colls = rmt.list_collections()
colls.remove("ben_dev")
colls.remove("ZBrain")
for coll in colls:
exps = rmt.list_experiments(coll)
for exp in exps:
exp_res = rmt.get_experiment(coll, exp)
coord_frame_res = rmt.get_coordinate_frame(exp_res.coord_frame)
chs = rmt.list_channels(coll, exp)
for ch in chs:
ch_res = rmt.get_channel(ch, coll, exp)
with open("public_datasets.csv", "a") as f:
f.write(
f"{coll},{exp},{ch},{exp_res.description},{exp_res.num_hierarchy_levels},{ch_res.datatype},{coord_frame_res.x_start},{coord_frame_res.x_stop},{coord_frame_res.y_start},{coord_frame_res.y_stop},{coord_frame_res.z_start},{coord_frame_res.z_stop}\n"
)
