#!/bin/bash
set -e

pkg=seq-gen

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

cp /usr/share/doc/${pkg}/examples/* -a "${AUTOPKGTEST_TMP}"

cd "${AUTOPKGTEST_TMP}"
gunzip -r *

echo 'Test 1'
seq-gen -mHKY -t3.0 -f0.3,0.2,0.2,0.3 -l40 -n3 < example.tree > test1.dat

echo 'Test 2'
seq-gen -mHKY -p5 -n5 -d0.3 < heterogeneity.tree > test2.dat

echo 'Test 3'
seq-gen -mHKY -g3 -a0.1 < recombinant.tree > test3.dat

echo 'Test 4'
seq-gen -mHKY -l3 -n5 -z190000 -d0.4 < seqs+trees.phy > test4.dat

