#!/bin/bash
set -ex

pkg=pplacer
CUR_DIR=`pwd`

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 ${CUR_DIR}/debian-tests-data/* -a "${AUTOPKGTEST_TMP}"

cd "${AUTOPKGTEST_TMP}"

echo "127b8f054fc0e2cade75c7922f06e919  p4z1r36.xml" >> checksums
echo "eb8193d86364a6c5687199f4cd1b2caf  dist_matrix" >> checksums
echo "0e738fe4fccf66d29c349af393393e8b  cluster.tre" >> checksums
echo "e7ccd9be33592127b60649b122d017fe  pca_out.xml" >> checksums

echo -e "\e[93m\e[1mRunning Tests\e[0m"  #Running demo commands

#Phylogenetic placement
pplacer -c vaginal_16s.refpkg src/p4z1r36.fasta

#xml fat tree visualization
guppy fat -c vaginal_16s.refpkg p4z1r36.jplace

#statistical comparison
guppy kr src/*.jplace > dist_matrix

#edge principal components analysis
guppy epca --prefix pca_out -c vaginal_16s.refpkg src/*.jplace

#squash clustering
guppy squash -c vaginal_16s.refpkg --out-dir . src/*.jplace


md5sum --check checksums
echo -e "\e[92m\e[1mPASS\e[0m"
