

set -ex



GMAP-fusion --help 2>&1 | grep Required
$PREFIX/share/gmap-fusion-0.4.0-2/util/compare_fusion_align_to_best_nonfusion_align.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/estimate_fusion_read_support.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/filter_gmap_chims_via_dist_from_exon_bounds.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/gmap_genome_gff3_to_chim_summary.pl 2>&1 | grep Required
$PREFIX/share/gmap-fusion-0.4.0-2/util/prep_evidence_for_IGV.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/retrieve_fusion_transcript_candidates.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/revise_chim_candidate_list_via_split_align_reassessment.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/screen_fusion_genome_breakpoint_for_confounding_kmers.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/screen_fusion_trans_genes_for_kmer_confounders.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/split_fusion_gmap_parts.pl 2>&1 | grep usage
$PREFIX/share/gmap-fusion-0.4.0-2/util/write_GMAP_Fusion_annot_report.pl 2>&1 | grep usage
exit 0
