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openmodel.hoc
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// Salto
// (c) Charles CH Cohen, 2014-present
// this software is released to the public under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0
// International license (CC BY-NC-ND 4.0, in English).
// for any questions, please email [email protected]
// ------------------------------Directories---------------------------------------
strdef root, lib, ses, data
root = getcwd()
sprint(lib, "%s%s", root, "lib/")
sprint(ses, "%s%s", root, "ses/")
sprint(data, "%s%s", root, "data/")
// --------------------------------------------------------------------------------
load_file("stdgui.hoc")
chdir(lib)
load_file("startlib.hoc")
loadfile(ses, "morph.hoc")
mode_ = getvar(ses, "mode.dat")
setmaxform()
setmaxformvec()
idata = getvar(ses, "idata.dat")
setfilestr(mode_, idata)
loaddll()
iampvec = getvec(ses, iampvecfilestr, iampvec)
temprec = getvar(ses, temprecfilestr)
nrec = getstrlist(ses, recloclistfilestr, recloclist)
injvec = getvec(ses, "injlist.dat", injvec)
if (idata) {
nrows = getmat(ses, vdatfilestr, vdatmat)
tdatvec = new Vector()
tdatvec.append(vdatmat.getcol(0))
nsigt = getnsig(tdatvec)
BBvec = getvec(ses, "BBvec.dat", BBvec)
if (mode_ == 0) {
createpip(nrec)
conpip(recloclist)
}
} else {
nsigt = 6
}
settform()
settformvec()
recseclist = loclist2seclist(recloclist, recseclist)
load_file("defsec.hoc")
axbleb_exists = getvar(ses, "axbleb_exists.dat")
bigsecl()
axontype = getaxontype()
celltypevec = getcelltype()
paral = setparal()
juxtal = setjuxtal()
lilsecl()
load_file("setnseg.hoc")
setnseg(mode_, idata, fracl, minmaxnseg)
load_file("defparam.hoc")
defparam()
defAISpts()
load_file("setparam.hoc")
initpvecs()
getmodeltype(mode_, idata)
setparam(mode_, idata)
load_file("defsps.hoc")
defmorph_sp()
defdist_sp()
defsps()
load_file("setsps.hoc")
setsps()
load_file("setmyelin.hoc")
setmy()
load_file("setstim.hoc")
seticlamp()
load_file("getparam.hoc")
load_file("writeses.hoc")
steps_per_ms = getsteps()
setdt()
tstop = gettstop(mode_, idata)
if (idata) {
dt = setnsig(dt, nsigt)
bess = getvar(ses, "bessfil.dat")
nsigv = getnsig(vdatmat.getcol(1))
nf = getnf()
if ((num = iampvec.indwhere("==", stim.amp)) != -1) {
tol = settol(num, !chkpara())
} else {
tol = settol(0, !chkpara())
}
maxstepsize = setmaxstepsize(tol)
} else {
dt = 0.01
bess = 100
nsigv = 6
}
setvform()
setvformvec()
if (!chkpara()) {
writecontrol(mode_, idata)
writevtplot(mode_, idata, stim.amp)
writevxplot(stim.amp)
writeshape(stim.amp)
}
if (idata && !chkpara()) {
writemulfit()
if (iampvec.indwhere("==", stim.amp) >= 0) {
writefitdata(iampvec.indwhere("==", stim.amp))
} else {
writefitdata(0)
}
writefitparam()
}
loadfile(ses, runcontrolfilestr)
loadfile(ses, vtplotfilestr)
loadfile(ses, vxplotfilestr)
loadfile(ses, shapeplotfilestr)
loadfile(ses, savedatafilestr)
finitialize(v_init)
initPlot()
setstimpanel()
setparampanel(mode_, idata)
load_file("getfit.hoc")
loadfile(ses, "time.dat")
adj_injbound(mode_)
print_modeltype(mode_, idata)
print_celltype()
print_axontype()
write_modeltype()
updrfp()
getoptsoln(mode_, idata)
setoptpanel()
showdom()
pelog(-1, -1)
load_file("init.hoc")
load_file("genopt.hoc")
load_file("petextract.hoc")
load_file("perank.hoc")
initfit(mode_, idata)
init()