The array @files only contains the filenames without the full path. Prepend the path of the directory to the filename. And please use some more modern code for open:
open my $fh, "<", "/tmp/files/$file" or die $!;
The code to ignore . and .. also looks strange to me.
I usually do
my @files = grep { not m/^\.\.?$/ } readdir $dh;
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