#!/usr/bin/perl

use strict; use warnings;
use NEURO qw(load_study);
use Data::Dump qw(dump);
use File::Find::Rule;

my $study = "mopead";
my %std = load_study($study);
my $src_dir = '/nas/corachan/MOPEAD/';
my $conv_file = $std{'DATA'}.'/converted_t2.csv';
my $ids_file = $std{'DATA'}.'/ids.csv';
my $names_file =$std{'DATA'}.'/ni_names.csv';
my $proj_file = $std{'DATA'}.'/mopead.csv';
my @other_exts = ("nii.gz","json");
my $series = 6;
my $tag = "t2_space_dark-fluid_sag_p2_iso";

#Leo la DB
my %idsinfo;
open IDS, "<$ids_file" or die $!;
while(<IDS>){
        chomp;
        my ($key, $value) = split(/,\s?/);
        $idsinfo{$key} = $value;
}
close IDS;
#Leo los que ya he descomprimido
my @orig_str = qx/ls $src_dir/;
chomp @orig_str;
#Leo los que se han convertido
my @conv_str;
open CONV, "<$conv_file" or die $!;
chomp (@conv_str = <CONV>);
close CONV;
#Y a ver cuantos faltan por convertir!
my %conv_str = map { $_ => 1 } @conv_str;
my @not_conv = grep !$conv_str{$_}, @orig_str;
# y a convertirlos!
foreach my $guy (@not_conv){
        if(exists($idsinfo{$guy})){
                my @conv_files = find(file => 'name' => "*$tag*.nii.gz", in => $std{'DATA'}.'/niftis/'.$guy.'/');       
                my $count = $series;
                foreach my $nii_file (@conv_files){
                        my $order = 'fslval '.$nii_file.' dim1';
                        my $xinfo = qx/$order/;
                        if ($xinfo == '192'){
                                my $file_name = $nii_file;
                                foreach my $ext (@other_exts){
                                        ($file_name = $nii_file) =~ s/nii.gz$/$ext/;
                                        my $order = sprintf "cp %s %s/mop%04ds%04d.%s", $file_name, $std{'MRI2'}, $idsinfo{$guy}, $count, $ext;
                                        print "$order\n";
                                        system($order);
                                }
                                $count++;
                        }
                }
        }
}
#actualizo los convertidos
push(@conv_str, @not_conv);
open CONV, ">$conv_file" or die $!;
print CONV "$_\n" foreach @conv_str;
close CONV;