[med-svn] [Git][med-team/mothur][master] 3 commits: Do not include sys/sysctl.h since it will be removed and is not used anyway

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / mothur


Commits:
c14c3dde by Andreas Tille at 2020-12-04T21:52:18+01:00
Do not include sys/sysctl.h since it will be removed and is not used anyway

- - - - -
e4fff2b7 by Andreas Tille at 2020-12-04T21:52:49+01:00
routine-update: Standards-Version: 4.5.1

- - - - -
4da324a9 by Andreas Tille at 2020-12-04T21:53:03+01:00
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

- - - - -


5 changed files:

- debian/changelog
- debian/control
- + debian/patches/drop_sys_sysctl.h.patch
- debian/patches/series
- debian/upstream/metadata


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,13 @@
+mothur (1.44.3-2) UNRELEASED; urgency=medium
+
+  * Do not include sys/sysctl.h since it will be removed and is
+    not used anyway
+    Closes: #967985
+  * Standards-Version: 4.5.1 (routine-update)
+  * Set upstream metadata fields: Repository, Repository-Browse.
+
+ -- Andreas Tille <tille at debian.org>  Fri, 04 Dec 2020 21:50:02 +0100
+
 mothur (1.44.3-1) unstable; urgency=medium
 
   * New upstream version 1.44.3


=====================================
debian/control
=====================================
@@ -10,7 +10,7 @@ Build-Depends: debhelper-compat (= 13),
                libboost-iostreams-dev,
                libreadline-dev,
                zlib1g-dev
-Standards-Version: 4.5.0
+Standards-Version: 4.5.1
 Vcs-Browser: https://salsa.debian.org/med-team/mothur
 Vcs-Git: https://salsa.debian.org/med-team/mothur.git
 Homepage: https://www.mothur.org


=====================================
debian/patches/drop_sys_sysctl.h.patch
=====================================
@@ -0,0 +1,35 @@
+Description: Do not include sys/sysctl.h since it will be removed and is not used anyway
+Bug-Debia: https://bugs.debian.org/967985
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Fri, 04 Dec 2020 21:50:02 +0100
+
+--- a/source/uchime_src/myutils.cpp
++++ b/source/uchime_src/myutils.cpp
+@@ -672,7 +672,6 @@ double GetMemUseBytes()
+ #include <stdio.h>
+ #include <unistd.h>
+ #include <sys/types.h>
+-#include <sys/sysctl.h>
+ #include <sys/socket.h>
+ #include <sys/gmon.h>
+ #include <mach/vm_param.h>
+--- a/source/mothur.h
++++ b/source/mothur.h
+@@ -83,7 +83,6 @@
+ 	#include <sys/resource.h>
+ 	#include <sys/types.h>
+ 	#include <sys/stat.h>
+-    #include <sys/sysctl.h>
+ 	#include <unistd.h>
+ 
+ 	
+--- a/TestMothur/catch.hpp
++++ b/TestMothur/catch.hpp
+@@ -7992,7 +7992,6 @@ namespace Catch {
+     #include <stdbool.h>
+     #include <sys/types.h>
+     #include <unistd.h>
+-    #include <sys/sysctl.h>
+ 
+     namespace Catch{
+ 


=====================================
debian/patches/series
=====================================
@@ -1 +1,2 @@
 0002-Fix-include.patch
+drop_sys_sysctl.h.patch


=====================================
debian/upstream/metadata
=====================================
@@ -29,3 +29,5 @@ Registry:
    Entry: SCR_011947
  - Name: conda:bioconda
    Entry: mothur
+Repository: https://github.com/mothur/mothur.git
+Repository-Browse: https://github.com/mothur/mothur



View it on GitLab: https://salsa.debian.org/med-team/mothur/-/compare/3ff22c70507d77141dd280ce73f22c38a3c9e3e3...4da324a9feefb4100e0ac9e48461dd7de3d4253d

-- 
View it on GitLab: https://salsa.debian.org/med-team/mothur/-/compare/3ff22c70507d77141dd280ce73f22c38a3c9e3e3...4da324a9feefb4100e0ac9e48461dd7de3d4253d
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