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Commits on Source (2)
norsnet (1.0.17-5) UNRELEASED; urgency=medium
* Team upload.
[Saira Hussain]
* Add unit tests
-- Saira Hussain <saira.h0213@zoho.com> Wed, 31 Jul 2019 11:31:56 +0100
norsnet (1.0.17-4) unstable; urgency=medium
* pp-popularity-contest only suggested
......
Tests: run-unit-tests
Depends: @
Restrictions: allow-stderr
#!/bin/bash
set -e
pkg=mcl
if [ "${AUTOPKGTEST_TMP}" = "" ] ; then
AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
# Double quote below to expand the temporary directory variable now versus
# later is on purpose.
# shellcheck disable=SC2064
# trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM
fi
cp /usr/share/doc/${pkg}/examples/* -a "${AUTOPKGTEST_TMP}"
cd "${AUTOPKGTEST_TMP}"
gunzip -r *
# Just for debugging
set -x
#Generation of protein families
mcxload -abc protein_graphs.txt --stream-mirror --stream-neg-log10 -stream-tf 'ceil(200)' -o protein_graphs.mci -write-tab protein_graphs.tab
mcl protein_graphs.mci -I 2
mcxdump -icl out.protein_graphs.mci.I20 -tabr protein_graphs.tab -o clusters.protein_graphs.mci.I20
#Building clusters of genomes
mcxload -abc genome_graphs.txt --stream-mirror -o genome_graphs.mci -write-tab genome_graphs.tab
mcl genome_graphs.mci -I 1.2
mcl genome_graphs.mci -I 2
mcl genome_graphs.mci -I 4
mcl genome_graphs.mci -I 6
mcxdump -icl out.genome_graphs.mci.I12 -tabr genome_graphs.tab -o clusters.genome.mci.I12
mcxdump -icl out.genome_graphs.mci.I20 -tabr genome_graphs.tab -o clusters.genome.mci.I20
mcxdump -icl out.genome_graphs.mci.I40 -tabr genome_graphs.tab -o clusters.genome.mci.I40
mcxdump -icl out.genome_graphs.mci.I60 -tabr genome_graphs.tab -o clusters.genome.mci.I60