[med-svn] [Git][med-team/nanook][master] 8 commits: routine-update: Standards-Version: 4.5.0

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / nanook


Commits:
2877ff7a by Andreas Tille at 2020-06-28T08:33:12+02:00
routine-update: Standards-Version: 4.5.0

- - - - -
3761c74c by Andreas Tille at 2020-06-28T08:33:13+02:00
routine-update: debhelper-compat 13

- - - - -
7f35893f by Andreas Tille at 2020-06-28T08:33:16+02:00
routine-update: Add salsa-ci file

- - - - -
1de426a0 by Andreas Tille at 2020-06-28T08:33:16+02:00
routine-update: Rules-Requires-Root: no

- - - - -
dd8e7d26 by Andreas Tille at 2020-06-28T08:33:20+02:00
Set upstream metadata fields: Repository, Repository-Browse.

Fixes: lintian: upstream-metadata-missing-repository
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html

- - - - -
b9993c49 by Andreas Tille at 2020-06-28T08:36:12+02:00
Add debian/source/include-binaries

- - - - -
c7836854 by Andreas Tille at 2020-06-28T10:41:36+02:00
Provide test data in extra examples package to not bloat user machines to much

- - - - -
32ae9fda by Andreas Tille at 2020-06-28T11:01:53+02:00
Add Bug-Submit and upload to unstable

- - - - -


14 changed files:

- debian/README.test
- debian/changelog
- − debian/compat
- debian/control
- − debian/examples
- + debian/nanook-examples.install
- debian/docs → debian/nanook.docs
- debian/install → debian/nanook.install
- debian/jlibs → debian/nanook.jlibs
- debian/links → debian/nanook.links
- debian/manpages → debian/nanook.manpages
- + debian/salsa-ci.yml
- + debian/source/include-binaries
- debian/upstream/metadata


Changes:

=====================================
debian/README.test
=====================================
@@ -3,6 +3,7 @@ Notes on how this package can be tested.
 
 This package can be tested by running the provided test:
 
+    sudo apt install nanook-examples
     sh run-unit-test
 
 in order to confirm its integrity.


=====================================
debian/changelog
=====================================
@@ -1,4 +1,6 @@
-nanook (1.33+dfsg-2) UNRELEASED; urgency=medium
+nanook (1.33+dfsg-2) unstable; urgency=medium
+
+  * Team upload
 
   [ Hervé Ménager ]
   * correct bio.tools and scicrunch refs
@@ -11,6 +13,16 @@ nanook (1.33+dfsg-2) UNRELEASED; urgency=medium
   * Add autopkgtests
   * Install docs
 
+  [ Andreas Tille ]
+  * Standards-Version: 4.5.0 (routine-update)
+  * debhelper-compat 13 (routine-update)
+  * Add salsa-ci file (routine-update)
+  * Rules-Requires-Root: no (routine-update)
+  * Set upstream metadata fields: Repository, Repository-Browse.
+  * debian/source/include-binaries
+  * Provide test data in extra examples package to not bloat user
+    machines to much
+
  -- Pranav Ballaney <ballaneypranav at gmail.com>  Sun, 28 Jun 2020 04:53:32 +0530
 
 nanook (1.33+dfsg-1) unstable; urgency=medium


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


=====================================
debian/control
=====================================
@@ -3,14 +3,15 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.
 Uploaders: Andreas Tille <tille at debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 11~),
+Build-Depends: debhelper-compat (= 13),
                default-jdk,
                javahelper,
                libcommons-io-java
-Standards-Version: 4.2.1
+Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/nanook
 Vcs-Git: https://salsa.debian.org/med-team/nanook.git
 Homepage: https://documentation.tgac.ac.uk/display/NANOOK/NanoOK
+Rules-Requires-Root: no
 
 Package: nanook
 Architecture: all
@@ -39,3 +40,22 @@ Description: pre- and post-alignment analysis of nanopore sequencing data
  quality analysis. Along the way, it generates plain text files which can
  be used for further analysis, as well as graphs suitable for inclusion
  in presentations and papers.
+
+Package: nanook-examples
+Architecture: all
+Depends: ${misc:Depends},
+Enhances: nanook
+Description: pre- and post-alignment analysis of nanopore sequencing data (examples)
+ NanoOK is a flexible, multi-reference software for pre- and post-
+ alignment analysis of nanopore sequencing data, quality and error
+ profiles.
+ .
+ NanoOK (pronounced na-nook) is a tool for extraction, alignment and
+ analysis of Nanopore reads. NanoOK will extract reads as FASTA or FASTQ
+ files, align them (with a choice of alignment tools), then generate a
+ comprehensive multi-page PDF report containing yield, accuracy and
+ quality analysis. Along the way, it generates plain text files which can
+ be used for further analysis, as well as graphs suitable for inclusion
+ in presentations and papers.
+ .
+ This package contains some example data.


=====================================
debian/examples deleted
=====================================
@@ -1 +0,0 @@
-debian/tests/*
\ No newline at end of file


=====================================
debian/nanook-examples.install
=====================================
@@ -0,0 +1,2 @@
+debian/tests/*			usr/share/doc/nanook/examples
+debian/tests/run-unit-test	usr/share/doc/nanook/


=====================================
debian/docs → debian/nanook.docs
=====================================
@@ -1,4 +1,2 @@
 README.md
 debian/README*
-debian/tests/run-unit-test
-debian/tests/README*


=====================================
debian/install → debian/nanook.install
=====================================


=====================================
debian/jlibs → debian/nanook.jlibs
=====================================


=====================================
debian/links → debian/nanook.links
=====================================


=====================================
debian/manpages → debian/nanook.manpages
=====================================


=====================================
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/source/include-binaries
=====================================
@@ -0,0 +1,2 @@
+debian/tests/data.tar.gz
+debian/tests/ref.tar.gz


=====================================
debian/upstream/metadata
=====================================
@@ -23,3 +23,6 @@ Registry:
    Entry: OMICS_09997
  - Name: conda:bioconda
    Entry: NA
+Repository: https://github.com/TGAC/NanoOK.git
+Repository-Browse: https://github.com/TGAC/NanoOK
+Bug-Submit: richard.leggett at earlham.ac.uk



View it on GitLab: https://salsa.debian.org/med-team/nanook/-/compare/a76719c53704128eb1d149d16c857844a5be8490...32ae9fdac441729084a257199b1424ca7b57dcd5

-- 
View it on GitLab: https://salsa.debian.org/med-team/nanook/-/compare/a76719c53704128eb1d149d16c857844a5be8490...32ae9fdac441729084a257199b1424ca7b57dcd5
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