

set -ex



cstacks 2>&1 | grep "cstacks"
gstacks --help
sstacks 2>&1 | grep "sstacks"
ustacks 2>&1 | grep "ustacks"
phasedstacks 2>&1 | grep "phasedstacks"
populations 2>&1 | grep "populations"
process_radtags 2>&1 | grep "process_radtags"
process_shortreads 2>&1 | grep "process_shortreads"
clone_filter 2>&1 | grep "clone_filter"
kmer_filter 2>&1 | grep "kmer_filter"
stacks-dist-extract --help
tsv2bam --help
convert_stacks.pl -h
denovo_map.pl -h 2>&1 | grep "denovo_map.pl"
extract_interpop_chars.pl -h
stacks-integrate-alignments --help
ref_map.pl 2>&1 | grep "ref_map.pl"
stacks-count-reads-per-sample-per-locus 2>&1 | grep "usage"
stacks-hist2d-loci-samples-coverage 2>&1 | grep "usage"
stacks-samtools-tview 2>&1 | grep "usage"
exit 0
