#!/bin/bash
set -e

pkg=seqsero

export LC_ALL=C.UTF-8
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 -a /usr/share/doc/${pkg}/examples/* "${AUTOPKGTEST_TMP}"

cd "${AUTOPKGTEST_TMP}"

echo "Test for checking functionality"
seqsero -m 3 -i sra_data.fastq
cat $(find -name "Seqsero_result.txt") > result
[ -s result ] || exit 1
cat result
echo "PASS"
