#!/bin/bash

set -e

pkg="swarm"

if [ "$AUTOPKGTEST_TMP" = "" ]; then
    AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
    trap "rm -rf $AUTOPKGTEST_TMP" 0 INT QUIT ABRT PIPE TERM
fi

cd $AUTOPKGTEST_TMP
cp /usr/share/doc/${pkg}/test-data/* .
gunzip *.gz

echo "Testing swarm with parameters recommended...\n"
swarm -f -w OTUs.fasta input.fasta > /dev/null
[ -s OTUs.fasta ]

echo "\nPASS"
