[med-svn] [bppsuite] 03/03: Version 2.3.2.

[Julien Dutheil]

This is an automated email from the git hooks/post-receive script.

jdutheil-guest pushed a commit to branch master
in repository bppsuite.

commit 0abf0298f40810350cf012575089783115c887b6
Author: Julien Y. Dutheil <dutheil at evolbio.mpg.de>
Date:   Wed Feb 7 11:49:10 2018 +0100

    Version 2.3.2.
---
 debian/changelog                         |  9 +++++++--
 debian/control                           |  8 ++++----
 debian/patches/linkage.patch             |  2 +-
 debian/patches/series                    |  1 +
 debian/patches/set_max_compression.patch | 15 +++++++++++++++
 5 files changed, 28 insertions(+), 7 deletions(-)

diff --git a/debian/changelog b/debian/changelog
index 8b7e854..4e6f7f2 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,8 +1,13 @@
-bppsuite (2.3.1-5) UNRELEASED; urgency=medium
+bppsuite (2.3.2-1) UNRELEASED; urgency=medium
 
+  [ Julien Dutheil ]
+  * New upstream version
+  * Standards-Version: 4.1.2 (no changes needed)
+
+  [ Steffen Moeller ]
   * debian/upstream/metadata; added reference to registries
 
- -- Steffen Moeller <moeller at debian.org>  Tue, 12 Sep 2017 16:49:42 +0200
+ -- Julien Dutheil <julien.dutheil at univ-montp2.fr>  Wed, 07 Feb 2018 11:28:09 +0200
 
 bppsuite (2.3.1-4) unstable; urgency=medium
 
diff --git a/debian/control b/debian/control
index 07f2f04..5f924fa 100644
--- a/debian/control
+++ b/debian/control
@@ -7,9 +7,9 @@ Priority: optional
 Build-Depends: debhelper (>= 10),
                cmake,
                texinfo,
-               libbpp-phyl-dev (>= 2.3.1),
-               libbpp-popgen-dev (>= 2.3.1),
-Standards-Version: 4.1.0
+               libbpp-phyl-dev (>= 2.3.2),
+               libbpp-popgen-dev (>= 2.3.2),
+Standards-Version: 4.1.2
 Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/bppsuite.git
 Vcs-Git: https://anonscm.debian.org/git/debian-med/bppsuite.git
 Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page
@@ -36,12 +36,12 @@ Description: Bio++ program suite
   - BppSeqMan for file conversion and sequence manipulation,
   - BppConsense for building consensus tree and computing
     bootstrap values,
-  - BppPhySamp for phylogenetic sampling,
   - BppReRoot for tree rerooting.
   - BppTreeDraw for tree drawing.
   - BppAlnScore for comparing alignments and computing alignment scores.
   - BppMixedLikelihoods for computing site per site likelihoods of
     components of mixture models.
+  - BppPopGen for population genetics analyses.
 
 Package: bppsuite-examples
 Architecture: all
diff --git a/debian/patches/linkage.patch b/debian/patches/linkage.patch
index 963e790..12feaa4 100644
--- a/debian/patches/linkage.patch
+++ b/debian/patches/linkage.patch
@@ -5,7 +5,7 @@ Description: Fixed linkage issue on x32 arch.
 --- a/bppSuite/CMakeLists.txt
 +++ b/bppSuite/CMakeLists.txt
 @@ -41,6 +41,7 @@ foreach (target ${bppsuite-targets})
-     set_target_properties (${target} LINK_SEARCH_END_STATIC TRUE)
+     set_target_properties (${target} PROPERTIES LINK_SEARCH_END_STATIC TRUE)
    else (BUILD_STATIC)
      target_link_libraries (${target} ${BPP_LIBS_SHARED})
 +    set_target_properties (${target} PROPERTIES POSITION_INDEPENDENT_CODE TRUE)
diff --git a/debian/patches/series b/debian/patches/series
index 93a0615..60eac0b 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -1,2 +1,3 @@
 spelling.patch
 linkage.patch
+set_max_compression.patch
diff --git a/debian/patches/set_max_compression.patch b/debian/patches/set_max_compression.patch
new file mode 100644
index 0000000..4166670
--- /dev/null
+++ b/debian/patches/set_max_compression.patch
@@ -0,0 +1,15 @@
+diff --git a/CMakeLists.txt b/CMakeLists.txt
+index 011e25b..f94e92b 100644
+--- a/CMakeLists.txt
++++ b/CMakeLists.txt
+@@ -60,8 +60,8 @@ else ()
+   endif ()
+   # Generate command line args (always add -c to output compressed file to stdout)
+   if (${COMPRESS_PROGRAM} STREQUAL "gzip")
+-    # -n for no timestamp in files (reproducible builds)
+-    set (COMPRESS_ARGS -c -n)
++    # -n for no timestamp in files (reproducible builds) -9n for maximal compression
++    set (COMPRESS_ARGS -c -n -9n)
+   else ()
+     set (COMPRESS_ARGS -c)
+   endif ()

-- 
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/bppsuite.git