[med-svn] [freebayes] 01/06: Adapt to libtabixpp-dev

[Andreas Tille]

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tille pushed a commit to branch master
in repository freebayes.

commit 2b1eb322a6df17a2eed2e460c60e8cae25690f7d
Author: Andreas Tille <tille at debian.org>
Date:   Mon Nov 7 18:03:57 2016 +0100

    Adapt to libtabixpp-dev
---
 debian/control                                    | 3 ++-
 debian/patches/use_debian_packaged_bamtools.patch | 2 +-
 debian/patches/use_debian_packaged_vcflib.patch   | 4 ++--
 3 files changed, 5 insertions(+), 4 deletions(-)

diff --git a/debian/control b/debian/control
index 2c1cab6..52eb4dd 100644
--- a/debian/control
+++ b/debian/control
@@ -8,7 +8,8 @@ Build-Depends: debhelper (>= 9),
                cmake,
                zlib1g-dev,
                libbamtools-dev,
-               libvcflib-dev
+               libvcflib-dev,
+               libtabixpp-dev
 Standards-Version: 3.9.8
 Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/freebayes.git
 Vcs-Git: https://anonscm.debian.org/git/debian-med/freebayes.git
diff --git a/debian/patches/use_debian_packaged_bamtools.patch b/debian/patches/use_debian_packaged_bamtools.patch
index b9c8922..097649c 100644
--- a/debian/patches/use_debian_packaged_bamtools.patch
+++ b/debian/patches/use_debian_packaged_bamtools.patch
@@ -13,7 +13,7 @@ Description: Use Debian packaged bamtools
  
 -LIBS = -L./ -L$(VCFLIB_ROOT)/tabixpp/ -L$(BAMTOOLS_ROOT)/lib -ltabix -lz -lm
 -INCLUDE = -I$(BAMTOOLS_ROOT)/src -I../ttmath -I$(VCFLIB_ROOT)/src -I$(VCFLIB_ROOT)/
-+LIBS = -L./ -L$(VCFLIB_ROOT)/tabixpp/ -lbamtools -ltabix -lz -lm
++LIBS = -L./ -L$(VCFLIB_ROOT)/tabixpp/ -lbamtools -ltabixpp -lz -lm
 +INCLUDE = -I/usr/include/bamtools -I../ttmath -I$(VCFLIB_ROOT)/src -I$(VCFLIB_ROOT)/
  
  all: autoversion ../bin/freebayes ../bin/bamleftalign
diff --git a/debian/patches/use_debian_packaged_vcflib.patch b/debian/patches/use_debian_packaged_vcflib.patch
index 9b55763..e57706f 100644
--- a/debian/patches/use_debian_packaged_vcflib.patch
+++ b/debian/patches/use_debian_packaged_vcflib.patch
@@ -12,9 +12,9 @@ Index: b/src/Makefile
  
 -VCFLIB_ROOT=../vcflib
 -
--LIBS = -L./ -L$(VCFLIB_ROOT)/tabixpp/ -lbamtools -ltabix -lz -lm
+-LIBS = -L./ -L$(VCFLIB_ROOT)/tabixpp/ -lbamtools -ltabixpp -lz -lm
 -INCLUDE = -I/usr/include/bamtools -I../ttmath -I$(VCFLIB_ROOT)/src -I$(VCFLIB_ROOT)/
-+LIBS = -lbamtools -ltabix -lz -lm
++LIBS = -lbamtools -ltabixpp -lz -lm
 +INCLUDE = -I/usr/include/bamtools -I../ttmath -I/usr/include/vcflib -I/usr/include/intervaltree -I/usr/include/smithwaterman
  
  all: autoversion ../bin/freebayes ../bin/bamleftalign

-- 
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