[med-svn] [Git][med-team/hmmer2][master] 9 commits: Do not Build-Depend pvm-dev and disable pvm in configure

Andreas Tille gitlab at salsa.debian.org
Wed Aug 12 10:46:38 BST 2020 


Andreas Tille pushed to branch master at Debian Med / hmmer2


Commits:
bcb860c8 by Andreas Tille at 2020-08-12T11:43:46+02:00
Do not Build-Depend pvm-dev and disable pvm in configure

- - - - -
62f9ffaf by Andreas Tille at 2020-08-12T11:44:16+02:00
routine-update: Standards-Version: 4.5.0

- - - - -
b9b90f3b by Andreas Tille at 2020-08-12T11:44:16+02:00
routine-update: debhelper-compat 13

- - - - -
6b2d6de6 by Andreas Tille at 2020-08-12T11:44:20+02:00
routine-update: Remove trailing whitespace in debian/changelog

- - - - -
da3a236c by Andreas Tille at 2020-08-12T11:44:20+02:00
routine-update: Add salsa-ci file

- - - - -
1e863b1c by Andreas Tille at 2020-08-12T11:44:21+02:00
routine-update: Rules-Requires-Root: no

- - - - -
2b27b7e0 by Andreas Tille at 2020-08-12T11:44:30+02:00
Set upstream metadata fields: Repository, Repository-Browse.

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

- - - - -
ecdc1857 by Andreas Tille at 2020-08-12T11:44:30+02:00
Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright).

Changes-By: lintian-brush

- - - - -
43194d90 by Andreas Tille at 2020-08-12T11:45:47+02:00
routine-update: Ready to upload to unstable

- - - - -


6 changed files:

- debian/changelog
- − debian/compat
- debian/control
- debian/rules
- + debian/salsa-ci.yml
- debian/upstream/metadata


Changes:

=====================================
debian/changelog
=====================================
@@ -1,4 +1,4 @@
-hmmer2 (2.5j+dfsg-1) UNRELEASED; urgency=medium
+hmmer2 (2.5j+dfsg-1) unstable; urgency=medium
 
   * Development of hmmer2 seems to be continued at Github
     https://github.com/MichiganTech/hmmer -> point watch file to this
@@ -10,8 +10,16 @@ hmmer2 (2.5j+dfsg-1) UNRELEASED; urgency=medium
   * Drop hmmer2-pvm package
   * libhmmer2-dev package drops static lib (this is not automatically
     generated by upstream any more)
+  * Standards-Version: 4.5.0 (routine-update)
+  * debhelper-compat 13 (routine-update)
+  * Remove trailing whitespace in debian/changelog (routine-update)
+  * Add salsa-ci file (routine-update)
+  * Rules-Requires-Root: no (routine-update)
+  * Set upstream metadata fields: Repository, Repository-Browse.
+  * Remove obsolete field Name from debian/upstream/metadata (already present in
+    machine-readable debian/copyright).
 
- -- Andreas Tille <tille at debian.org>  Fri, 11 Jan 2019 15:43:07 +0100
+ -- Andreas Tille <tille at debian.org>  Wed, 12 Aug 2020 11:44:30 +0200
 
 hmmer2 (2.3.2+dfsg-6) unstable; urgency=medium
 
@@ -136,8 +144,8 @@ hmmer2 (2.3.2-7) unstable; urgency=low
     - Removed myself from the Uploaders.
     - Removed obsolete DM-Upload-Allowed field.
     - Use canonical VCS URLs.
-    - Normalised using config-model-edit. 
-    - Build-depend on libperl4-corelibs-perl (Closes: #730921). 
+    - Normalised using config-model-edit.
+    - Build-depend on libperl4-corelibs-perl (Closes: #730921).
   * Conforms with Policy 3.9.5.
 
  -- Charles Plessy <plessy at debian.org>  Sun, 01 Dec 2013 09:26:43 +0900
@@ -159,16 +167,16 @@ hmmer2 (2.3.2-6) unstable; urgency=low
     hmmer (>=3) in wheezy.
   * Renaming binaries and man pages:
 
-     hmmalign     => hmm2align    
-     hmmbuild     => hmm2build    
+     hmmalign     => hmm2align
+     hmmbuild     => hmm2build
      hmmcalibrate => hmm2calibrate
-     hmmconvert   => hmm2convert  
-     hmmemit      => hmm2emit     
-     hmmfetch     => hmm2fetch    
-     hmmindex     => hmm2index    
-     hmmpfam      => hmm2pfam     
-     hmmsearch    => hmm2search   
-     
+     hmmconvert   => hmm2convert
+     hmmemit      => hmm2emit
+     hmmfetch     => hmm2fetch
+     hmmindex     => hmm2index
+     hmmpfam      => hmm2pfam
+     hmmsearch    => hmm2search
+
      hmmcalibrate-pvm => hmm2calibrate-pvm
      hmmpfam-pvm      => hmm2pfam-pvm
      hmmsearch-pvm    => hmm2search-pvm
@@ -255,7 +263,7 @@ hmmer (2.1.3) unstable; urgency=low
   * Move from /usr/doc to /usr/share/doc (closes: #91494)
 
  -- Matthew Vernon <matthew at debian.org>  Mon, 09 Apr 2001 16:12:21 +0100
-	
+
 hmmer (2.1.2) unstable; urgency=low
 
   * New maintainer


=====================================
debian/compat deleted
=====================================
@@ -1 +0,0 @@
-12


=====================================
debian/control
=====================================
@@ -4,17 +4,17 @@ Uploaders: Andreas Tille <tille at debian.org>,
            Laszlo Kajan <lkajan at debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 12~),
-               pvm-dev,
+Build-Depends: debhelper-compat (= 13),
                libperl4-corelibs-perl,
                libsquid-dev,
                pkg-config,
                dh-exec,
                rename
-Standards-Version: 4.3.0
+Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/hmmer2
 Vcs-Git: https://salsa.debian.org/med-team/hmmer2.git
 Homepage: http://hmmer.janelia.org/
+Rules-Requires-Root: no
 
 Package: hmmer2
 Architecture: any


=====================================
debian/rules
=====================================
@@ -13,7 +13,7 @@ sampledir:=$(CURDIR)/debian/$(pkgdata)/usr/share/doc/$(pkgdata)/examples
 	dh $@
 
 override_dh_auto_configure:
-	dh_auto_configure -- --enable-threads --enable-lfs --enable-pvm
+	dh_auto_configure -- --enable-threads --enable-lfs # --enable-pvm
 	# avoid duplicated definition of PACKAGE_NAME (basically conflicting with biosquid when used together)
 	sed -i -e '/^#define PACKAGE_NAME /i #ifndef PACKAGE_NAME' \
 	       -e '/^#define PACKAGE_NAME /a #endif' \


=====================================
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
=====================================
@@ -1,5 +1,4 @@
 Contact: http://selab.janelia.org/people/eddys/contact.html
-Name: HMMER
 Reference:
  Author: Eddy, Sean R.
  Title: Profile hidden Markov models
@@ -20,3 +19,5 @@ Registry:
    Entry: hmmer2
  - Name: conda:bioconda
    Entry: hmmer2
+Repository: https://github.com/MichiganTech/hmmer.git
+Repository-Browse: https://github.com/MichiganTech/hmmer



View it on GitLab: https://salsa.debian.org/med-team/hmmer2/-/compare/795e6a04a8d4663298a2ed85e6a7404088bb1c0c...43194d908114dc7f1ec1dbeb6877d05ea10cdc6d

-- 
View it on GitLab: https://salsa.debian.org/med-team/hmmer2/-/compare/795e6a04a8d4663298a2ed85e6a7404088bb1c0c...43194d908114dc7f1ec1dbeb6877d05ea10cdc6d
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