#!/bin/bash
set -e

pkg=nanolyse

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

cd "${AUTOPKGTEST_TMP}"

cat paired_reads.fastq | NanoLyse > reads_without_lambda.fastq
