[med-svn] [Git][med-team/augustus][master] 4 commits: add patch to enable building with GCC 15

[Sascha Steinbiss (@satta)]

Sascha Steinbiss pushed to branch master at Debian Med / augustus


Commits:
3d24b1c5 by Sascha Steinbiss at 2025-03-24T09:49:46+01:00
add patch to enable building with GCC 15

- - - - -
1beb82e3 by Sascha Steinbiss at 2025-03-24T09:49:57+01:00
bump Standards-Version

- - - - -
3fed1b62 by Sascha Steinbiss at 2025-03-24T09:50:12+01:00
bump copyright date for debian/ directory

- - - - -
1e867044 by Sascha Steinbiss at 2025-03-24T09:50:18+01:00
use libncurses-dev instead of libncurses5-dev

- - - - -


5 changed files:

- debian/changelog
- debian/control
- debian/copyright
- + debian/patches/gcc-15.patch
- debian/patches/series


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,13 @@
+augustus (3.5.0+dfsg-5) unstable; urgency=medium
+
+  * Add patch to enable building with GCC 15.
+    Closes: #1096345
+  * Bump Standards-Version.
+  * Bump copyright date for debian/ directory.
+  * Use libncurses-dev instead of libncurses5-dev.
+
+ -- Sascha Steinbiss <satta at debian.org>  Mon, 24 Mar 2025 00:47:37 +0100
+
 augustus (3.5.0+dfsg-4) unstable; urgency=medium
 
   * Ensure multiple builds can be done in same directory.


=====================================
debian/control
=====================================
@@ -12,7 +12,7 @@ Build-Depends: debhelper-compat (= 13),
                libbamtools-dev,
                libbz2-dev,
                libhts-dev,
-               libncurses5-dev,
+               libncurses-dev,
                libboost-serialization-dev,
                libssl-dev,
                libmysql++-dev,
@@ -20,7 +20,7 @@ Build-Depends: debhelper-compat (= 13),
                python3,
                samtools,
                chrpath
-Standards-Version: 4.6.1
+Standards-Version: 4.7.2
 Rules-Requires-Root: no
 Vcs-Browser: https://salsa.debian.org/med-team/augustus
 Vcs-Git: https://salsa.debian.org/med-team/augustus.git


=====================================
debian/copyright
=====================================
@@ -19,7 +19,7 @@ Copyright: © 2011 University of Greifswald
 License: Artistic
 
 Files: debian/*
-Copyright: © 2016 Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Copyright: © 2016-2025 Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 License: GPL-3+
 
 License: Artistic


=====================================
debian/patches/gcc-15.patch
=====================================
@@ -0,0 +1,14 @@
+Description: enable building with GCC 15
+Author: Sascha Steinbiss <sascha at steinbiss.name>
+Forwarded: https://github.com/Gaius-Augustus/Augustus/pull/431 
+Last-Update: 2025-03-24
+--- a/auxprogs/filterBam/src/headers/bamaccess.hh
++++ b/auxprogs/filterBam/src/headers/bamaccess.hh
+@@ -7,6 +7,7 @@
+ #include <iostream>
+ #include <vector>
+ #include <memory>
++#include <cstdint>
+ 
+ class BamAlignmentRecord;
+ typedef std::shared_ptr<BamAlignmentRecord> BamAlignmentRecord_;


=====================================
debian/patches/series
=====================================
@@ -5,3 +5,4 @@ switch_cgp_testing_off.patch
 disable-compare.patch
 s390x-disable-filterbam-tests.patch
 cstdint.patch
+gcc-15.patch



View it on GitLab: https://salsa.debian.org/med-team/augustus/-/compare/627c2334566ffdf60c35432101828c8e1d4bab4f...1e867044124eba1318f13b9c080fd66d2fe48390

-- 
View it on GitLab: https://salsa.debian.org/med-team/augustus/-/compare/627c2334566ffdf60c35432101828c8e1d4bab4f...1e867044124eba1318f13b9c080fd66d2fe48390
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