Mohd Bilal pushed to branch master at Debian Med / emmax
Commits: d0ce860c by Mohammed Bilal at 2022-07-12T17:33:20+00:00 routine-update: Packaging update - - - - - 7fa8edb4 by Mohammed Bilal at 2022-07-12T17:33:25+00:00 routine-update: Standards-Version: 4.6.1 - - - - - 4dd9afd4 by Mohammed Bilal at 2022-07-12T17:33:26+00:00 routine-update: debhelper-compat 13 - - - - - f08446ba by Mohammed Bilal at 2022-07-12T17:33:33+00:00 routine-update: Remove trailing whitespace in debian/copyright - - - - - c8822632 by Mohammed Bilal at 2022-07-12T17:33:34+00:00 routine-update: Add salsa-ci file - - - - - 08b3a4f7 by Mohammed Bilal at 2022-07-12T17:33:35+00:00 routine-update: Rules-Requires-Root: no - - - - - 720ca911 by Mohammed Bilal at 2022-07-12T23:11:56+05:30 Add autopkgtests - - - - - 492ea076 by Mohammed Bilal at 2022-07-12T23:16:47+05:30 Update changelog - - - - - 7 changed files: - debian/changelog - − debian/compat - debian/control - debian/copyright - + debian/salsa-ci.yml - + debian/tests/control - + debian/tests/run-unit-test Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,20 @@ +emmax (0~beta.20100307-2) UNRELEASED; urgency=medium + + [ Steffen Möller ] + * Team upload. + * Update metadata with ref to conda + + [ Mohammed Bilal ] + * routine-update: Packaging update + * routine-update: Standards-Version: 4.6.1 + * routine-update: debhelper-compat 13 + * routine-update: Remove trailing whitespace in debian/copyright + * routine-update: Add salsa-ci file + * routine-update: Rules-Requires-Root: no + * Add autopkgtests + + -- Mohammed Bilal <[email protected]> Tue, 12 Jul 2022 23:16:02 +0530 + emmax (0~beta.20100307-1) unstable; urgency=low * Initial release (Closes: #925158) ===================================== debian/compat deleted ===================================== @@ -1 +0,0 @@ -12 ===================================== debian/control ===================================== @@ -4,17 +4,18 @@ Uploaders: SteffenSteffen Moeller <[email protected]>, Andreas Tille <[email protected]> Section: science Priority: optional -Build-Depends: debhelper (>= 12~), +Build-Depends: debhelper-compat (= 13), libatlas-base-dev, liblapack-dev, zlib1g-dev, libblas3, liblapack3, libatlas3-base -Standards-Version: 4.3.0 +Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/emmax Vcs-Git: https://salsa.debian.org/med-team/emmax.git Homepage: http://genome.sph.umich.edu/wiki/EMMAX +Rules-Requires-Root: no Package: emmax Architecture: any ===================================== debian/copyright ===================================== @@ -1,6 +1,6 @@ Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: emmax -Upstream-Contact: Hyun Min Kang <[email protected]> +Upstream-Contact: Hyun Min Kang <[email protected]> Source: http://genetics.cs.ucla.edu/emmax/ Files: * ===================================== debian/salsa-ci.yml ===================================== @@ -0,0 +1,4 @@ +--- +include: + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml ===================================== debian/tests/control ===================================== @@ -0,0 +1,3 @@ +Tests: run-unit-test +Depends: @, plink +Restrictions: allow-stderr ===================================== debian/tests/run-unit-test ===================================== @@ -0,0 +1,35 @@ +#!/bin/bash +set -e + +pkg=plink + +export LC_ALL=C.UTF-8 +if [ "${AUTOPKGTEST_TMP}" = "" ] ; then + AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX) + trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM +fi + +cp -a /usr/share/doc/${pkg}/examples/* "${AUTOPKGTEST_TMP}" + +cd "${AUTOPKGTEST_TMP}" + +echo "247395d4cfd4bef03befd9672a2afe0a test.emmax.ps" >> checksums + +p-link --noweb --file test --recode12 --output-missing-genotype 0 --transpose --out test + +awk '{print $1,$2,$6}' test.ped > test.emmax_phenotypes +sed -i 's/-9$/NA/' test.emmax_phenotypes +sed -i 's/0$/NA/' test.emmax_phenotypes + +echo -e "\e[93m\e[1mRunning Tests\e[0m" + +echo -e "\e[93m\e[1mTest 1\e[0m" + +emmax-kin -v -d 10 test + +echo -e "\e[93m\e[1mTest 2\e[0m" + +emmax -v -d 10 -t test -p test.emmax_phenotypes -k test.BN.kinf -o test.emmax + +md5sum --check checksums +echo -e "\e[92m\e[1mPASS\e[0m" View it on GitLab: https://salsa.debian.org/med-team/emmax/-/compare/2e9ee3883a705fa511a09504bd98cab6eb553907...492ea076f0958ce65cbdf9ec8dae52560af00797 -- View it on GitLab: https://salsa.debian.org/med-team/emmax/-/compare/2e9ee3883a705fa511a09504bd98cab6eb553907...492ea076f0958ce65cbdf9ec8dae52560af00797 You're receiving this email because of your account on salsa.debian.org.
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