[med-svn] [Git][med-team/pique][master] 7 commits: Fix description

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / pique


Commits:
0959b6ae by Andreas Tille at 2020-07-20T11:59:43+02:00
Fix description

- - - - -
617ebe65 by Andreas Tille at 2020-07-20T12:01:08+02:00
routine-update: Standards-Version: 4.5.0

- - - - -
dd0c3cc6 by Andreas Tille at 2020-07-20T12:01:08+02:00
routine-update: debhelper-compat 13

- - - - -
f1ce6287 by Andreas Tille at 2020-07-20T12:01:15+02:00
routine-update: Add salsa-ci file

- - - - -
18ed8318 by Andreas Tille at 2020-07-20T12:01:15+02:00
routine-update: Rules-Requires-Root: no

- - - - -
f220e8aa by Andreas Tille at 2020-07-20T12:01:20+02:00
Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse.

Changes-By: lintian-brush
Fixes: lintian: upstream-metadata-file-is-missing
See-also: https://lintian.debian.org/tags/upstream-metadata-file-is-missing.html
Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html
Fixes: lintian: upstream-metadata-missing-repository
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html

- - - - -
35f20be9 by Andreas Tille at 2020-07-20T12:04:24+02:00
Cleanup changelog from automated changes

- - - - -


5 changed files:

- − debian/README.test
- − debian/compat
- debian/control
- + debian/salsa-ci.yml
- + debian/upstream/metadata


Changes:

=====================================
debian/README.test deleted
=====================================
@@ -1,8 +0,0 @@
-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/compat deleted
=====================================
@@ -1 +0,0 @@
-12


=====================================
debian/control
=====================================
@@ -3,11 +3,12 @@ Section: science
 Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 Uploaders: Andreas Tille <tille at debian.org>
-Build-Depends: debhelper (>= 12~)
-Standards-Version: 4.3.0
+Build-Depends: debhelper-compat (= 13)
+Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/pique
 Vcs-Git: https://salsa.debian.org/med-team/pique.git
 Homepage: https://github.com/tony-travis/PIQUE/
+Rules-Requires-Root: no
 
 Package: pique
 Architecture: all
@@ -22,5 +23,20 @@ Depends: ${perl:Depends},
          libfile-slurp-perl,
          r-cran-forecast,
          r-cran-uroot
-Description: parallel identification of QTL's using EMMAX
- FIXME: parallel identification of QTL's using EMMAX
+Description: software pipeline for performing genome wide association studies
+ PIQUE is a software pipeline for performing genome wide association
+ studies (GWAS). The main function of PIQUE is to provide ‘convenience’
+ wrappers that allow users to perform GWAS using the popular program
+ EMMAX (Kang et al., 2010) without the need to be familiar with all of
+ the software tools used to generate the required EMMAX input files.
+ PIQUE will also perform a number of of quality control steps prior to
+ running EMMAX, ensuring that the various input data files are in the
+ correct format. PIQUE proceeds in two main stages although there are
+ multiple entry and exit points from which the pipeline can be run. The
+ first stage consists of running the “emmax-input” program, which can
+ read genotype and phenotype information in several different formats and
+ generates all the necessary input files required to run EMMAX. The
+ second step in the pipeline uses the “emmax-run” program to actually run
+ EMMAX using the files generated by “emmax-input” (or pre-existing
+ user-supplied input files) to perform the GWAS and output the analysis
+ summary 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/upstream/metadata
=====================================
@@ -0,0 +1,5 @@
+---
+Bug-Database: https://github.com/tony-travis/PIQUE/issues
+Bug-Submit: https://github.com/tony-travis/PIQUE/issues/new
+Repository: https://github.com/tony-travis/PIQUE.git
+Repository-Browse: https://github.com/tony-travis/PIQUE



View it on GitLab: https://salsa.debian.org/med-team/pique/-/compare/0940fe16067106ca60804e77caf873e46e852a86...35f20be9ac31f0a9f1fed03916fc627315610eee

-- 
View it on GitLab: https://salsa.debian.org/med-team/pique/-/compare/0940fe16067106ca60804e77caf873e46e852a86...35f20be9ac31f0a9f1fed03916fc627315610eee
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