#!/bin/bash
set -e
set -x

pkg=nanostat
data=python3-nanoget

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/${data}/examples/nanotest "${AUTOPKGTEST_TMP}"

cd "${AUTOPKGTEST_TMP}"

gunzip nanotest/[as]*.gz

NanoStat -h

NanoStat --fastq nanotest/reads.fastq.gz --prefix tester
NanoStat --bam nanotest/alignment.bam -o outdir
NanoStat --summary nanotest/sequencing_summary.txt -n testerfile
NanoStat --fasta nanotest/reads.fa.gz
