3. Run a segmented simulation and save its results

Here I proceded by close analogy to how I segmented simulation of a cell model.

  1. Create a hoc file called netrecord_segrun.hoc that contains statements that execute a user-specified number of simulation segments and save each segment's results to a separate file.
  2. Copy initnet_fullrun.hoc to initnet_segrun.hoc, and edit this new file to change the load_file("netrecord_fullrun.hoc") statement to load_file("netrecord_segrun.hoc").

Here is initnet_segrun.hoc


load_file("netspec.hoc") // properties of network
load_file("netrig.hoc") // basic instrumentation and simulation control
  // required to launch a simulation and see results
  // i.e. just a RunControl, Vector recording of spike times and cell IDs,
  // and a graph that shows a spike raster

  // executes series of short runs, and saves each to its own dat file.

Here is netrecord_segrun.hoc. The "new" stuff in this file are the declarations of the simulation parameters NSEGS and SEGDUR, and proc do_segments().

///// advanced instrumentation

// spike times and cell IDs are already being recorded

///// advanced simulation control

// $o1, $o2 Vectors of x & y values, respectively
// $s3 file name string
proc xytofile() { local i  localobj tfil
  print "writing to ", $s3
  tfil = new File()
  for i=0,$o1.size()-1 tfil.printf("%11.4f\t%d\n", $o1.x[i], $o2.x[i])

// execute NSEGS segments, each of duration SEGDUR
// save results to NSEGS files called segment00.dat..segmentnn.dat
// where nn is the two digit integer NSEGS-1

SEGDUR = 3000 // duration of a segment
NSEGS = 3  // how many in a complete simulation

// run $1 segments, each of duration $2
// save results to $1 files called $s300.dat..$s3nn.dat

strdef tmpstr // for constructed file names

proc do_segments() { local i, j, tfin
  tfin = 0
  for i=0,$1-1 { // iterate over the segments
/* doing this here will lose the point at t = 0
    tfin+=$2 // this segment's end time
    print "this run ends at ", tfin

    fake_idvec() // just for this toy model

    sprint(tmpstr, "%s%2.2d.dat", $s3, i) // construct name of file
      // to hold current segment's results
      // name is of the form $s3nn.dat, where nn is a two place integer
    xytofile(spikes, idvec, tmpstr) // save results to file
    // prepare for next pass
    // no need to capture last point of previous continuerun

do_segments(NSEGS, SEGDUR, "segment") // generates segment00.dat..segmentnn.dat
  // where nn is a two digit integer equal to NSEGS - 1

The comments next to the last statement in cellrecord_segrun.hoc describe what will happen when initcell_segrun.hoc is executed.

The only aspect of cellrecord_segrun.hoc that is questionable is that the statements that assign values to SEGDUR and NSEGS are buried in the middle of the file. It would be best to put these assignment statements at the very beginning of initcell_segrun.hoc, where they will be most easily found in case someone ever wants to change segment duration or the number of segments.