#!/usr/bin/perl

$stroot = "PK";
$shortLab = "Peaks";
$longLab = "HOMER Peaks";

$prio = 250;

##############################################################

$datadir = "data";
$trackname = "trackDb.$stroot.txt";
$infofile = "sample_tags.txt";

@abs = ("K27_HC", "K27_WV", "K9_HC", "K9_WV", "input");
@trts = ("Veh", "P4");
@reps = (1,2,3);
@versionsDup = ("max1","max3","max5","maxX");
@versionsDS = ("all","ds50M");

%abColors = ("K27_HC" => "0,153,0",      # green
             "K27_WV" => "0,0,204",      # blue
             "K9_HC" => "255,128,0",     # orange
             "K9_WV" => "255,0,127",     # pink
             "input" => "102,102,102");  # gray

@ids = (); %id2ab = (); %id2trt = (); %id2rep = ();
open(INFO, "$infofile");
while (<INFO>) {
  next if ($_ =~ /^\#/);
  chomp $_; ($id, $ab, $trt, $r) = split/\t/, $_;
  push @ids, $id;
  $id2ab{$id} = $ab;
  $id2trt{$id} = $trt;
  $id2rep{$id} = $r;
}
close(INFO);

##############################################################

open(OUT, ">$trackname");

##### homer peaks #####
# write header supertrack header
print OUT "track\tdata$stroot\n";
print OUT "compositeTrack\ton\n";
print OUT "shortLabel\t$shortLab\n";
print OUT "longLabel\t$longLab\n";
print OUT "priority\t$prio\n";
print OUT "subGroup1\tview View PK=peaks\n";
print OUT "subGroup2\tAntibody Antibody"; foreach $ab (@abs) { print OUT " $ab=$ab"; } print OUT "\n";
print OUT "subGroup3\tTreatment Treatment"; foreach $trt (@trts) { print OUT " $trt=$trt"; } print OUT "\n";
print OUT "subGroup4\tRep Rep"; foreach $r (@reps) { print OUT " $r=$r"; } print OUT "\n";
print OUT "subGroup5\tDups Dups"; foreach $verDup (@versionsDup) { print OUT " $verDup=$verDup"; } print OUT "\n";
print OUT "subGroup6\tDS DS"; foreach $verDS (@versionsDS) { print OUT " $verDS=$verDS"; } print OUT "\n";
print OUT "dimensions\tdimX=Antibody dimY=Treatment dimA=Dups dimB=DS dimC=Rep\n";
print OUT "sortOrder\tAntibody=+ Treatment=+ Dups=+ DS=+ Rep=+\n";
print OUT "type\tbigWig\n\n";

# write header for peak tracks
print OUT "   track\tdata$stroot\_Peaks\n";
print OUT "   parent\tdata$stroot\n";
print OUT "   shortLabel\t$shortLab\n";
print OUT "   longLabel\t$longLab\n";
print OUT "   view\tPK\n";
print OUT "   visibility\tdense\n";
print OUT "   type\tbigBed 3\n";
print OUT "   allButtonPair\ton\n";
print OUT "   centerLabelsDense\ton\n";
print OUT "   dragAndDrop\ton\n";
print OUT "   showSubtrackColorOnUi\ton\n";
print OUT "   viewUi\ton\n\n";

# write peak tracks
foreach $id (@ids) { foreach $verDup (@versionsDup) { foreach $verDS (@versionsDS) {
  next if ($id =~ /input/);
  $bbfile = "$datadir/$id.$verDup.$verDS.homer_peaks.bigBed";
  unless (-e $bbfile) { print "ERROR: Did not find $bbfile.\n"; exit; }
  $prio++;
  print OUT "      track\t$id.$verDup.$verDS.$stroot\n";
  print OUT "      parent\tdata$stroot\_Peaks\n";
  print OUT "      bigDataUrl\t$bbfile\n";
  print OUT "      shortLabel\t$id $verDup $verDS peaks\n";
  print OUT "      longLabel\tHOMER peaks ($id, $verDup, $verDS)\n";
  print OUT "      type\tbigBed 3\n";
  print OUT "      color\t$abColors{$id2ab{$id}}\n";
  print OUT "      priority\t$prio\n";
  print OUT "      visibility\tdense\n";
  print OUT "      subGroups\tAntibody=$id2ab{$id} Treatment=$id2trt{$id} Rep=$id2rep{$id} Dups=$verDup DS=$verDS view=PK\n\n";
} } }
print OUT "\n\n";

close(OUT);