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#!/usr/bin/env perl
use strict;
use warnings;
my $usage = "usage: $0 bfly_graph_out_list.file bfly_jar\n\n";
my $bfly_graph_list_file = $ARGV[0] or die $usage;
my $bfly_jar = $ARGV[1] or die $usage;
main: {
open (my $fh, $bfly_graph_list_file) or die $!;
while (<$fh>) {
chomp;
my $graph_out_file = $_;
$graph_out_file =~ s/\.out$//;
unless (-s "$graph_out_file.reads") {
print STDERR "WARNING - missing $graph_out_file.reads file.... skipping this one.\n";
next;
}
my $cmd = "java -Xmx10G -Xms1G -XX:ParallelGCThreads=2 -jar $bfly_jar -N 100000 -L 200 -F 500 -C $graph_out_file --path_reinforcement_distance=75 ";
print "$cmd\n";
}
close $fh;
exit(0);
}
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