def test_references(self):
"""
List references: GET /references
"""
beacons = Beacon()
res = beacons.references()
print res
self.assertTrue(len(res) > 0)
def test_chromosomes(self):
"""
List chromosomes: GET /chromosomes
"""
beacons = Beacon()
res = beacons.chromosomes()
print res
self.assertTrue(len(res) > 0)
def test_alleles(self):
"""
List alleles: GET /alleles
"""
beacons = Beacon()
res = beacons.alleles()
print res
self.assertTrue(len(res) > 0)
def test_beacon_get(self):
"""
Shows a beacon: GET /beacons/{beacon}
"""
beacons = Beacon()
res = beacons.beacon("amplab")
print beacons.beaconToString(res)
self.assertTrue(len(res.name) > 0)
def test_org_get(self):
"""
Shows an organization: GET /organizations/{organization}
"""
beacons = Beacon()
res = beacons.organization("agha")
print beacons.orgToString(res)
self.assertTrue(len(res.name) > 0)
def test_search(self):
"""
http://beacon-network.org/#/search?pos=32936732&chrom=13&allele=C&ref=G&rs=GRCh37
:return:
"""
beacon = Beacon()
res = beacon.search(chrom=13, pos=32936732, allele='C', ref='G')
print res
self.assertTrue(len(res) > 0)
def test_org_list(self):
"""
Lists organizations: GET /organizations
"""
beacons = Beacon()
res = beacons.organizationList()
for org in res:
print beacons.orgToString(org)
self.assertTrue(len(res) > 0)
self.assertTrue(len(res[0].name) > 0)
def test_beacons_list(self):
"""
List beacons: GET /beacons
"""
beacons = Beacon()
res = beacons.beaconList()
for b in res:
print beacons.beaconToString(b)
self.assertTrue(len(res) > 0)
self.assertTrue(len(res[0].name) > 0)
def test_referencesBeacon(self):
"""
Queries beacons: GET /responses/{beacon}
https://beacon-network.org/api/responses/brca-exchange?chrom=17&pos=41244981&allele=G&ref=GRCh37
"""
beacons = Beacon()
res = beacons.responsesBeacon(chrom=17,
pos=41244981,
allele='G',
ref='GRCh37',
beacon="brca-exchange")
print res
self.assertTrue(len(res) > 0)
def test_references(self):
"""
Queries beacons: GET /responses
https://beacon-network.org/api/responses?chrom=17&pos=41244981&allele=G&ref=GRCh37&beacon=[amplab,brca-exchange]
"""
beacons = Beacon()
res = beacons.responses(chrom=17,
pos=41244981,
allele='G',
ref='GRCh37',
beacon=["amplab", "brca-exchange"])
print res
self.assertTrue(len(res) > 0)
env = Env(np.array([0, 0]), obstacle_corners=[])
data['environment'].append(env.toJson())
# %%Parameter initialization
max_range = 3
_xi_max = 1
_d_perf = 0.1
_d_none = 2.5
_delta_expl_angle = 0 #np.pi/4 #np.pi/6
_K_o = 0.9
N_mins = 6
file_path = r'json_files\line_explore_test123.json'
dt = 0.01
scs = SCS(Beacon.get_ID(),
max_range,
xi_max=_xi_max,
d_perf=_d_perf,
d_none=_d_none)
""" Line exploration """
mins = [
Min(Beacon.get_ID(),
max_range,
DeploymentFSM(NoFollow(),
LineExplore(kind=LineExploreKind.ONE_DIM_LOCAL, )),
xi_max=_xi_max,
d_perf=_d_perf,
d_none=_d_none) for i in range(N_mins)
]
)
data['environment'].append(env.toJson())
# %%Parameter initialization
max_range = 3
_xi_max = 1
_d_perf = 0.1
_d_none = 2.5
_delta_expl_angle = 0 #np.pi/4 #np.pi/6
_K_o = 0.9
N_mins = 6
file_path = r'json_files\ds_test_123.json'
dt = 0.01
scs = SCS(Beacon.get_ID(), max_range)
""" Potential fields exploration """
mins = [
Min(Beacon.get_ID(),
max_range,
DeploymentFSM(
NewAttractiveFollow(K_o=_K_o),
NewPotentialFieldsExplore(
K_o=_K_o,
target_point_or_line=NewPotentialFieldsExplore.Target.LINE)
),
xi_max=_xi_max,
d_perf=_d_perf,
d_none=_d_none,
delta_expl_angle=_delta_expl_angle) for i in range(N_mins)
]