#!/usr/bin/perl

$tool = "/ddn/gs1/home/grimmsa/tools/ucsc/bedToBigBed";
$cs = "/ddn/gs1/shared/dirib/reference_genomes/hg38/hg38.noAlt.chromSizes";

@files = split/\n/, `ls -1 *.bed`;
foreach $file (@files) {
  $bbfile = $file; $bbfile =~ s/\.bed/\.bigBed/;
  system "$tool $file $cs $bbfile";
}