def init_gap_junctions():
# initialize source
for mgid in range(params.Nmitral):
mpriden = split.mpriden(mgid)
if mpriden:
mpriden.push()
pc.source_var(mpriden(0.99)._ref_v, mgid)
h.pop_section()
pc.barrier()
# initialize targets
for mgid in range(params.Nmitral):
mpriden = split.mpriden(mgid)
if mpriden:
glomid = mgid/nmxg
for sistermgid in range(glomid * nmxg, mgid)+range(mgid+1, (glomid+1)*nmxg):
if pc.gid_exists(sistermgid) > 0:
gap = h.Gap(mpriden(0.99))
if sistermgid != 189:
getmodel().gj[(mgid, sistermgid)] = gap
glomid = mgid / nmxg
pc.target_var(gap, gap._ref_vgap, sistermgid)
util.elapsed('Gap junctions builden')
def send_to_master(srcvec):
global vcnts
if vcnts is None:
vcnts = h.Vector(nhost)
vcnts.x[0] = len(srcvec)
destvec = h.Vector()
pc.alltoall(srcvec, vcnts, destvec)
pc.barrier()
return destvec
def test1():
pc.barrier()
for r in range(nhost):
if r == rank:
for gid1 in gidinfo:
cellinfo = gidinfo[gid1]
for gid2, gap in cellinfo.gaps.items():
print("%d %d %g" % (gid1, gid2, gap.g))
pc.barrier()
def paraboloid_to_file(par):
if rank == 0:
try:
import pickle
fname = paraboloid_filename()
f = open(fname, "wb")
pickle.dump(par, f)
print("dumped paraboloid to " + fname)
except:
print("could not dump " + fname)
pass
pc.barrier()
def paraboloid_from_file():
par = None
if rank == 0:
try:
import pickle
fname = paraboloid_filename()
f = open(fname, "rb")
par = pickle.load(f)
print("paraboloid read from " + fname)
except:
print(fname + " does not exist. Will be created")
par = pc.py_broadcast(par, 0)
pc.barrier()
return par
def init():
data = {}
for uid in range(nhost):
data.update({ uid:(getmodel().mitrals.keys()) })
data = a2a.all2all(data)
mgids = []
for _mgids in data.values(): mgids += _mgids
mgids = set(mgids)
# initialize source
for mgid in getmodel().mitrals.keys():
mpriden = split.mpriden(mgid)
if not mpriden:
continue
rgj = params.ranstream(mgid, params.stream_gap_junction)
mpriden.push()
secref = h.SectionRef()
h.pop_section()
h.mk_gj_src(pc, mgid, secref)
glomid = mgid2glom(mgid)
sistergids = []
# no longer all to all, only a chain
if not (ismtufted(mgid) and (mgid - nmi) % nmt == (nmt - 1)):
if ismitral(mgid) and mgid % nmxg == (nmxg - 1):
sistergids += [glomid * nmt + nmi]
else:
sistergids += [mgid + 1]
if not (ismitral(mgid) and mgid % nmxg == 0):
if ismtufted(mgid) and (mgid - nmi) % nmt == 0:
sistergids += [(glomid + 1) * nmxg - 1]
else:
sistergids += [mgid - 1]
sistergids = mgids.intersection(range(glomid * nmxg, glomid * nmxg + nmxg) + range(glomid * nmt + nmi, glomid * nmt + nmt + nmi)).difference([ mgid ])
for sistermgid in sistergids:
gap = h.Gap(mpriden(0.99))
if ismitral(mgid) and ismitral(sistermgid):
gap.g = rgj.uniform(gj_min_g1, gj_max_g1)
elif ismtufted(mgid) and ismtufted(sistermgid):
gap.g = rgj.uniform(gj_min_g3, gj_max_g3)
else:
gap.g = rgj.uniform(gj_min_g2, gj_max_g2)
getmodel().gj[(mgid, sistermgid)] = gap
pc.barrier()
# initialize targets
for key, gap in getmodel().gj.items():
mgid, sistermgid = key
pc.target_var(gap, gap._ref_vgap, sistermgid)
util.elapsed('Gap junctions built')
pyplot.hist([c.cell.soma(.5).area() for c in gidinfo.values()])
pyplot.show()
pyplot.hist([c.cell.soma.L for c in gidinfo.values()])
pyplot.show()
pyplot.hist([
gap.g for cellinfo in gidinfo.values()
for gap in cellinfo.gaps.values()
])
pyplot.show()
def showpurk(): # only for nhost=1
global g
g = h.Graph()
g.size(0, npts[0][-1], 0, ncircle[0])
for gid, ci in gidinfo.items():
if ci.is_purk:
ilayer, icircle, ipt = gid2org(gid)
g.mark(ipt, icircle, "S", 10)
if __name__ == '__main__':
mknet()
#test1()
#test2()
#purkstim()
circlestim()
if pc.nhost() > 1:
pc.barrier()
h.quit()
