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#!/usr/bin/env perl
use strict;
use warnings;
use FindBin;
## we delete all files we don't need in this directory. Be careful in case users try running it somewhere else, outside this dir.
chdir $FindBin::RealBin or die "error, cannot cd to $FindBin::RealBin";
my @files_to_keep = qw (cleanMe.pl
runMe.sh
samples.txt
Makefile
minigenome.fa
minigenome.gtf
mini.Trinity_fmt.fasta
compare_dexseq_results.pl
plot_comparison.Rscript
test_for_cor.sh
);
my %keep = map { + $_ => 1 } @files_to_keep;
foreach my $file (<*>) {
if (! $keep{$file}) {
print STDERR "-removing file: $file\n";
unlink($file);
}
}
`rm -rf ./trinSuper.fasta.star.idx`;
`rm -rf ./*chkpts*`;
`rm -rf ./minigenome.fa.star.idx`;
`rm -rf ./_STAR*`;
exit(0);
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