[med-svn] [mauvealigner] 06/08: Do not build statically

[Andreas Tille]

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tille pushed a commit to branch master
in repository mauvealigner.

commit 210b6cb7e0e134082ee824b81a9472bb43d0fa77
Author: Andreas Tille <tille at debian.org>
Date:   Mon Apr 20 17:22:57 2015 +0200

    Do not build statically
---
 debian/patches/do_not_build_static_binaries.patch | 37 +++++++++++++++++++++++
 1 file changed, 37 insertions(+)

diff --git a/debian/patches/do_not_build_static_binaries.patch b/debian/patches/do_not_build_static_binaries.patch
new file mode 100644
index 0000000..287e7f6
--- /dev/null
+++ b/debian/patches/do_not_build_static_binaries.patch
@@ -0,0 +1,37 @@
+Author: Andreas Tille <tille at debian.org>
+Last-Updated: Sun, 19 Apr 2015 21:14:45 +0200
+Description: Avoid static linking
+ * mauveAlignerStatic fails to build due to a problem linking -lgomp symbols
+   May be these need to be linked right into libGenome to make thos working
+ * Moreover the -static flag is suppressed in general
+ * Once -static is droped progressiveMauveStatic becomes identical to
+   progressiveMauve and is thus skipped as well
+
+--- a/src/Makefile.am
++++ b/src/Makefile.am
+@@ -11,12 +11,12 @@ LIBRARY_CL = $(DEPS_LIBS)
+ #AM_LDADD = $(DEPS_LIBS) 
+ INCLUDES = @DEPS_CFLAGS@ 
+ 
+-bin_PROGRAMS = mauveAligner mauveStatic scoreAlignment \
++bin_PROGRAMS = mauveAligner scoreAlignment \
+ uniqueMerCount toRawSequence \
+ mfa2xmfa addUnalignedIntervals \
+ toMultiFastA getAlignmentWindows uniquifyTrees \
+ toGrimmFormat mauveToXMFA \
+-stripGapColumns progressiveMauve progressiveMauveStatic \
++stripGapColumns progressiveMauve \
+ extractBCITrees createBackboneMFA \
+ repeatoire alignmentProjector stripSubsetLCBs \
+ projectAndStrip makeBadgerMatrix randomGeneSample getOrthologList \
+--- a/configure.ac
++++ b/configure.ac
+@@ -48,7 +48,7 @@ AC_SUBST(DEPS_CFLAGS)
+ AC_SUBST(DEPS_LIBS)
+ 
+ dnl Mac OS X won't allow static compilation...
+-STATIC_FLAG="-static -Wl,--whole-archive -lpthread -Wl,--no-whole-archive"
++STATIC_FLAG="-Wl,--whole-archive -lpthread -Wl,--no-whole-archive"
+ if ( test "x$target_vendor" = "xapple") then
+         STATIC_FLAG=""
+ fi

-- 
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