[med-svn] [Git][med-team/sickle][master] 4 commits: Update upstream/metadata

[Nilesh Patra]

Nilesh Patra pushed to branch master at Debian Med / sickle


Commits:
296de9d5 by Nilesh Patra at 2020-06-27T20:32:34+05:30
Update upstream/metadata

- - - - -
f2c089f4 by Nilesh Patra at 2020-06-27T20:34:43+05:30
Add "Rules-Requires-Root:no"

- - - - -
03001fbc by Nilesh Patra at 2020-06-27T20:38:27+05:30
Add autopkgtests

- - - - -
deaa97bf by Nilesh Patra at 2020-06-27T20:40:59+05:30
Bump standards version to 4.5.0

- - - - -


5 changed files:

- − debian/compat
- debian/control
- + debian/tests/control
- + debian/tests/run-unit-test
- debian/upstream/metadata


Changes:

=====================================
debian/compat deleted
=====================================
@@ -1 +0,0 @@
-11


=====================================
debian/control
=====================================
@@ -6,11 +6,12 @@ Section: science
 Priority: optional
 Build-Depends: zlib1g-dev,
                help2man,
-               debhelper (>= 11~)
-Standards-Version: 4.2.1
+               debhelper-compat (= 13)
+Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/sickle
 Vcs-Git: https://salsa.debian.org/med-team/sickle.git
 Homepage: https://github.com/najoshi/sickle
+Rules-Requires-Root: no
 
 Package: sickle
 Architecture: any


=====================================
debian/tests/control
=====================================
@@ -0,0 +1,4 @@
+Tests: run-unit-test
+Depends: @
+Restrictions: allow-stderr
+


=====================================
debian/tests/run-unit-test
=====================================
@@ -0,0 +1,29 @@
+#!/bin/bash
+set -e
+
+pkg=sickle
+CUR_DIR=`pwd`
+
+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 ${CUR_DIR}/test/* -a "${AUTOPKGTEST_TMP}"
+
+cd "${AUTOPKGTEST_TMP}"
+gunzip -r *
+
+echo 'Test 1'
+sickle se -f test.fastq -t illumina -o test1_output_file.fastq
+sickle se -f test.f.fastq -t illumina -o test1_output_file.fastq -q 33 -l 40
+sickle se -f test.r.fastq -t illumina -o test1_output_file.fastq -x -n
+sickle se --fastq-file test.fastq --qual-type sanger --output-file test1_output_file.fastq
+echo 'PASS'
+echo
+
+echo 'Test 2'
+sickle pe -f test.fastq -r test.r.fastq -t sanger -o trimmed_output_file1.fastq -p trimmed_output_file2.fastq \
+-s trimmed_singles_file.fastq -q 2 -l 15
+echo 'PASS'
+


=====================================
debian/upstream/metadata
=====================================
@@ -7,3 +7,10 @@ Registry:
    Entry: OMICS_01077
  - Name: SciCrunch
    Entry: SCR_006800
+---
+Archive: GitHub
+Bug-Database: https://github.com/najoshi/sickle/issues
+Bug-Submit: https://github.com/najoshi/sickle/issues/new
+Changelog: https://github.com/najoshi/sickle/tags
+Repository: https://github.com/najoshi/sickle.git
+Repository-Browse: https://github.com/najoshi/sickle



View it on GitLab: https://salsa.debian.org/med-team/sickle/-/compare/ea342de05aee5d4f03f51c872d2740baa5afa71f...deaa97bf5d19a739b488834a7cf0a1576cac6f59

-- 
View it on GitLab: https://salsa.debian.org/med-team/sickle/-/compare/ea342de05aee5d4f03f51c872d2740baa5afa71f...deaa97bf5d19a739b488834a7cf0a1576cac6f59
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