#!/usr/bin/perl

# https://perlmonks.org/?node_id=1228412

use strict;
use warnings;

my $one =
  {
  data  => {
             dir1 => {
                       fileA => { pid => { 61781 => 1 }, total => 13 }
+,
                       fileB => { pid => { 61799 => 1 }, total => 12 }
+,
                     },
             dir2 => {
                       fileA => { pid => { 61439 => 1 }, total => 5 },
                       fileC => { pid => { 12345 => 1 }, total => 10 }
+,
                     },
           },
  total => { fileA => 18, fileB => 12, fileC => 10 },
  };

my $two =
  {
  data  => {
             dir3 => {
                       fileA => { pid => { 616161 => 1 }, total => 6 }
+,
                       fileD => { pid => { 54321 => 1 }, total => 12 }
+,
                     },
             dir4 => {
                       fileA => { pid => { 1718 => 1 }, total => 2 },
                       fileE => { pid => { 15151 => 1 }, total => 3 },
                     },
           },
  total => { fileA => 8, fileD => 12, fileE => 3 },
  };

my $newhash = 
  {
  data => { %{ $one->{data} }, %{ $two->{data} } },
  total => do
    {
    my %total;
    for my $href ( $one, $two )
      {
      $total{$_} += $href->{total}{$_} for keys %{ $href->{total} };
      }
    \%total;
    }
  };

use Data::Dump 'dd'; dd $newhash;
[download]

Outputs:

{
  data  => {
             dir1 => {
                       fileA => { pid => { 61781 => 1 }, total => 13 }
+,
                       fileB => { pid => { 61799 => 1 }, total => 12 }
+,
                     },
             dir2 => {
                       fileA => { pid => { 61439 => 1 }, total => 5 },
                       fileC => { pid => { 12345 => 1 }, total => 10 }
+,
                     },
             dir3 => {
                       fileA => { pid => { 616161 => 1 }, total => 6 }
+,
                       fileD => { pid => { 54321 => 1 }, total => 12 }
+,
                     },
             dir4 => {
                       fileA => { pid => { 1718 => 1 }, total => 2 },
                       fileE => { pid => { 15151 => 1 }, total => 3 },
                     },
           },
  total => { fileA => 26, fileB => 12, fileC => 10, fileD => 12, fileE
+ => 3 },
}
[download]

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