[med-svn] [Git][med-team/samtools-legacy][master] 4 commits: Add Depends on zlib1g-dev

[Nilesh Patra (@nilesh)]

Nilesh Patra pushed to branch master at Debian Med / samtools-legacy


Commits:
a0953324 by Nilesh Patra at 2021-07-24T22:44:10+05:30
Add Depends on zlib1g-dev

- - - - -
1678ceca by Nilesh Patra at 2021-07-24T22:44:28+05:30
Add autopkgtests

- - - - -
c8c7c707 by Nilesh Patra at 2021-07-24T22:47:28+05:30
Declare compliance with policy 4.5.1

- - - - -
baa30d41 by Nilesh Patra at 2021-07-24T22:47:28+05:30
Interim changelog entry

- - - - -


4 changed files:

- debian/changelog
- debian/control
- + debian/tests/control
- + debian/tests/run-unit-test


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,12 @@
+samtools-legacy (0.1.19+dfsg-2) UNRELEASED; urgency=medium
+
+  * Team Upload.
+  * Add Depends on zlib1g-dev
+  * Add autopkgtests
+  * Declare compliance with policy 4.5.1
+
+ -- Nilesh Patra <nilesh at debian.org>  Sat, 24 Jul 2021 22:47:09 +0530
+
 samtools-legacy (0.1.19+dfsg-1) unstable; urgency=medium
 
   * Team upload.


=====================================
debian/control
=====================================
@@ -6,7 +6,7 @@ Priority: optional
 Build-Depends: debhelper-compat (= 13),
                libncurses5-dev,
                zlib1g-dev
-Standards-Version: 4.5.0
+Standards-Version: 4.5.1
 Vcs-Browser: https://salsa.debian.org/med-team/samtools-legacy
 Vcs-Git: https://salsa.debian.org/med-team/samtools-legacy.git
 Homepage: https://www.htslib.org/
@@ -16,7 +16,8 @@ Package: libbam-dev
 Architecture: any
 Section: libdevel
 Depends: ${shlibs:Depends},
-         ${misc:Depends}
+         ${misc:Depends},
+         zlib1g-dev
 Description: manipulates nucleotide sequence alignments in BAM or SAM format
  The BAM library provides I/O and various operations on manipulating nucleotide
  sequence alignments in the BAM (Binary Alignment/Mapping) or SAM (Sequence


=====================================
debian/tests/control
=====================================
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @, build-essential, samtools
+Restrictions: allow-stderr


=====================================
debian/tests/run-unit-test
=====================================
@@ -0,0 +1,34 @@
+#!/bin/bash
+set -e
+
+pkg=cppnumericalsolvers
+CUR_DIR=`pwd`
+
+export LC_ALL=C.UTF-8
+if [ "${AUTOPKGTEST_TMP}" = "" ] ; then
+  AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
+  trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM
+fi
+
+cd "${AUTOPKGTEST_TMP}"
+cp ${CUR_DIR}/examples/* .
+
+samtools view -S -b toy.sam > toy.bam
+
+echo "Test 1 -- calDepth"
+gcc calDepth.c -o calDepth -I/usr/include/samtools -lbam -lm -lz -lpthread
+./calDepth toy.bam
+echo "=============== PASS ================"
+
+echo "Test 2 -- chk_indel"
+gcc chk_indel.c -o chk_indel -I/usr/include/samtools -lbam -lm -lz -lpthread
+./chk_indel toy.bam
+echo "=============== PASS ================"
+
+
+echo "Test 3 -- bam2bed"
+gcc bam2bed.c -o bam2bed -I/usr/include/samtools -lbam -lm -lz -lpthread
+./bam2bed toy.bam
+echo "=============== PASS ================"
+
+rm -f toy.bam



View it on GitLab: https://salsa.debian.org/med-team/samtools-legacy/-/compare/368be378d9ba419c664a00c8b60b893eda236262...baa30d41a44112f8d171783aca34c5f5cdfdb687

-- 
View it on GitLab: https://salsa.debian.org/med-team/samtools-legacy/-/compare/368be378d9ba419c664a00c8b60b893eda236262...baa30d41a44112f8d171783aca34c5f5cdfdb687
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