Pranav Ballaney pushed to branch master at Debian Med / dazzdb
Commits: e378603a by Pranav Ballaney at 2020-07-27T20:29:14+05:30 Install autopkgtests - - - - - 3e118a53 by Pranav Ballaney at 2020-07-27T20:29:27+05:30 Install docs - - - - - 6bc4f2ef by Pranav Ballaney at 2020-07-27T20:37:20+05:30 Add Pranav Ballaney to uploaders - - - - - 75865bbd by Pranav Ballaney at 2020-07-27T21:40:36+05:30 Update changelog - - - - - 6 changed files: - + debian/README.test - debian/changelog - debian/control - debian/docs - + debian/tests/control - + debian/tests/run-unit-test Changes: ===================================== debian/README.test ===================================== @@ -0,0 +1,8 @@ +Notes on how this package can be tested. +──────────────────────────────────────── + +This package can be tested by running the provided test: + + sh run-unit-test + +in order to confirm its integrity. ===================================== debian/changelog ===================================== @@ -1,3 +1,11 @@ +dazzdb (1.0+git20200115.d8adde7-3) UNRELEASED; urgency=medium + + * Install autopkgtests + * Install docs + * Add Pranav Ballaney to uploaders + + -- Pranav Ballaney <[email protected]> Mon, 27 Jul 2020 21:40:08 +0530 + dazzdb (1.0+git20200115.d8adde7-2) unstable; urgency=medium [ Helmut Grohne ] ===================================== debian/control ===================================== @@ -1,6 +1,7 @@ Source: dazzdb Maintainer: Debian Med Packaging Team <[email protected]> -Uploaders: Andreas Tille <[email protected]> +Uploaders: Andreas Tille <[email protected]>, + Pranav Ballaney <[email protected]> Section: science Priority: optional Build-Depends: debhelper-compat (= 12), ===================================== debian/docs ===================================== @@ -1 +1,3 @@ README.md +debian/README* +debian/tests/run-unit-test \ No newline at end of file ===================================== debian/tests/control ===================================== @@ -0,0 +1,3 @@ +Tests: run-unit-test +Depends: @ +Restrictions: allow-stderr ===================================== debian/tests/run-unit-test ===================================== @@ -0,0 +1,28 @@ +#!/bin/bash +set -e + +pkg=dazzdb + +export LC_ALL=C.UTF-8 +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 ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM +fi + +cd "${AUTOPKGTEST_TMP}" + +rangen 1.0 >R.fasta # Generate a randome 1Mbp sequence R.fasta +fasta2DAM R R.fasta # Load it into a .dam DB R.dam +dsimulator R -c20. >G.fasta # Sample a 20x data sets of the random geneome R +fasta2DB G G.fasta # Create a compressed data base of the reads, G.db +rm G.fasta # Redundant, recreate any time with "DB2fasta G" +DBsplit -s11 G # Split G into 2 parts of size ~ 11MB each +DBdust G.1 # Produce a "dust" track on each part +DBdust G.2 +Catrack G dust # Create one track for all of the DB +rm .G.*.dust.* # Clean up the sub-tracks +DBstats -mdust G # Take a look at the statistics for the database + View it on GitLab: https://salsa.debian.org/med-team/dazzdb/-/compare/23422ea31e9ab92f7ca09299080beccbdd44fad0...75865bbd247d88f72555505b657311f48f254e4c -- View it on GitLab: https://salsa.debian.org/med-team/dazzdb/-/compare/23422ea31e9ab92f7ca09299080beccbdd44fad0...75865bbd247d88f72555505b657311f48f254e4c You're receiving this email because of your account on salsa.debian.org.
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