1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
|
#!/bin/sh
# autopkgtest check: Run sumaclust on two identical chains with a threshold of
# 1 to check that only one cluster is created.
# (C) 2020 Pierre Gruet.
# Author: Pierre Gruet <pgt@debian.org>
set -e
WORKDIR=$(mktemp -d)
trap "rm -rf $WORKDIR" 0 INT QUIT ABRT PIPE TERM
cd $WORKDIR
cat <<EOF > inputIdentical.fasta
>SEQ_TEST1
CCAGATCTAGCTAGCTAGCTACAGCATCGACATCAGCACTCAGCACTCAG
>SEQ_TEST2
CCAGATCTAGCTAGCTAGCTACAGCATCGACATCAGCACTCAGCACTCAG
EOF
sumaclust -t 1. inputIdentical.fasta 2>&1 | \
sed -n '/clusters/ s/.*Done : 100 \% *//p' | \
sed -n 's/ clusters.*//p' | \
grep -q "1"
if [ $? -ne 0 ]; then
exit 1
fi
|
