tags 656755 +patch
thanks
While I really agree to this statement I think there is few chance that
somebody else will step in. We are just needing to maintain this as a
predependency for two important packages of the Debian Med team.
Ok I took pity on you and took a look at the Makefile.am in that
directory, turns out it wasn't that hard to disable building of the CPU
with SSE plugin. You should really be able to do this kind of
build-system modification yourself though, it's not like the package is
using an exotic build system it's bog standard autotools.
I have tested that the resulting package builds on i386, I have not
tested whether it actually works.
The attatched patch makes the aforementioned change and also makes
debian/rules clean actually work.
diff -urN libhmsbeagle-1.0/debian/patches/disable_cpu_sse_plugin.patch libhmsbeagle-1.0.new/debian/patches/disable_cpu_sse_plugin.patch
--- libhmsbeagle-1.0/debian/patches/disable_cpu_sse_plugin.patch 1970-01-01 01:00:00.000000000 +0100
+++ libhmsbeagle-1.0.new/debian/patches/disable_cpu_sse_plugin.patch 2012-01-25 11:00:07.000000000 +0000
@@ -0,0 +1,59 @@
+Description: Disable CPU_SSE plugin when building without SSE
+ The CPU_SSE plugin does not build without -msse
+Author: Peter Green <plugw...@p10link.net>
+Bug-Debian: http://bugs.debian.org/656755
+
+---
+The information above should follow the Patch Tagging Guidelines, please
+checkout http://dep.debian.net/deps/dep3/ to learn about the format. Here
+are templates for supplementary fields that you might want to add:
+
+Origin: <vendor|upstream|other>, <url of original patch>
+Bug: <url in upstream bugtracker>
+Bug-Debian: http://bugs.debian.org/<bugnumber>
+Bug-Ubuntu: https://launchpad.net/bugs/<bugnumber>
+Forwarded: <no|not-needed|url proving that it has been forwarded>
+Reviewed-By: <name and email of someone who approved the patch>
+Last-Update: <YYYY-MM-DD>
+
+Index: libhmsbeagle-1.0.new/libhmsbeagle/CPU/Makefile.am
+===================================================================
+--- libhmsbeagle-1.0.new.orig/libhmsbeagle/CPU/Makefile.am 2012-01-25 10:09:40.000000000 +0000
++++ libhmsbeagle-1.0.new/libhmsbeagle/CPU/Makefile.am 2012-01-25 10:09:40.000000000 +0000
+@@ -1,4 +1,4 @@
+-lib_LTLIBRARIES=libhmsbeagle-cpu.la libhmsbeagle-cpu-sse.la
++lib_LTLIBRARIES=libhmsbeagle-cpu.la
+
+ BEAGLE_CPU_COMMON = Precision.h EigenDecomposition.h \
+ EigenDecompositionCube.hpp EigenDecompositionCube.h \
+@@ -19,6 +19,8 @@
+ #
+ # CPU plugin with custom SSE code
+ #
++if HAVE_SSE
++lib_LTLIBRARIES += libhmsbeagle-cpu-sse.la
+ libhmsbeagle_cpu_sse_la_SOURCES = $(BEAGLE_CPU_COMMON) \
+ SSEDefinitions.h BeagleCPU4StateSSEImpl.hpp BeagleCPU4StateSSEImpl.h \
+ BeagleCPUSSEImpl.hpp BeagleCPUSSEImpl.h \
+@@ -26,6 +28,7 @@
+
+ libhmsbeagle_cpu_sse_la_CXXFLAGS = $(AM_CXXFLAGS)
+ libhmsbeagle_cpu_sse_la_LDFLAGS= -version-info $(GENERIC_LIBRARY_VERSION)
++endif
+
+ #
+ # CPU plugin with OpenMP parallel threads
+Index: libhmsbeagle-1.0.new/configure.ac
+===================================================================
+--- libhmsbeagle-1.0.new.orig/configure.ac 2012-01-25 10:41:40.000000000 +0000
++++ libhmsbeagle-1.0.new/configure.ac 2012-01-25 10:41:59.000000000 +0000
+@@ -222,6 +222,9 @@
+ if test "$enable_sse" = yes; then
+ SSE_CFLAGS+="-DENABLE_SSE"
+ AM_CXXFLAGS="$AM_CXXFLAGS -msse2"
++ AM_CONDITIONAL(HAVE_SSE,true)
++else
++ AM_CONDITIONAL(HAVE_SSE,false)
+ fi
+
+ # ------------------------------------------------------------------------------
diff -urN libhmsbeagle-1.0/debian/patches/series libhmsbeagle-1.0.new/debian/patches/series
--- libhmsbeagle-1.0/debian/patches/series 2012-01-21 16:36:24.000000000 +0000
+++ libhmsbeagle-1.0.new/debian/patches/series 2012-01-25 10:41:51.000000000 +0000
@@ -1 +1,2 @@
enable_static.patch
+disable_cpu_sse_plugin.patch
diff -urN libhmsbeagle-1.0/debian/rules libhmsbeagle-1.0.new/debian/rules
--- libhmsbeagle-1.0/debian/rules 2012-01-21 12:54:33.000000000 +0000
+++ libhmsbeagle-1.0.new/debian/rules 2012-01-25 10:53:59.000000000 +0000
@@ -42,6 +42,61 @@
$(MAKE) -f Makefile distclean || true
rm -rf doc .config configure
rm -rf lib build
+ rm -f acinclude.m4
+ rm -f INSTALL
+ rm -f libhmsbeagle/config.h.in
+ rm -f examples/*/Makefile.in
+ rm -f examples/Makefile.in
+ rm -f examples/*/*.o
+ rm -rf examples/*/.libs
+ rm -rf libhmsbeagle/*/.libs
+ rm -rf libhmsbeagle/.libs
+ rm -rf libhmsbeagle/*.o
+ rm -rf libhmsbeagle/*/*.o
+ rm -f Makefile
+ rm -f config.log
+ rm -f config.status
+ rm -f examples/Makefile
+ rm -f examples/complextest/Makefile
+ rm -f examples/complextest/complextest
+ rm -f examples/fourtaxon/Makefile
+ rm -f examples/fourtaxon/check_lnL_using_paup.nex
+ rm -f examples/fourtaxon/fourtaxon
+ rm -f examples/fourtaxon/fourtaxonrun.sh
+ rm -f examples/genomictest/Makefile
+ rm -f examples/genomictest/genomictest
+ rm -f examples/genomictest/genomictest.sh
+ rm -f examples/matrixtest/Makefile
+ rm -f examples/matrixtest/matrixtest
+ rm -f examples/oddstatetest/Makefile
+ rm -f examples/oddstatetest/oddstatetest
+ rm -f examples/tinytest/Makefile
+ rm -f examples/tinytest/tinytest
+ rm -f hmsbeagle-1.pc
+ rm -f libhmsbeagle/CPU/Makefile
+ rm -f libhmsbeagle/CPU/libhmsbeagle-cpu.la
+ rm -f libhmsbeagle/CPU/libhmsbeagle_cpu_la-BeagleCPUPlugin.lo
+ rm -f libhmsbeagle/GPU/Makefile
+ rm -f libhmsbeagle/GPU/kernels/Makefile
+ rm -f libhmsbeagle/Makefile
+ rm -f libhmsbeagle/config.h
+ rm -f libhmsbeagle/libhmsbeagle-jni.la
+ rm -f libhmsbeagle/libhmsbeagle.la
+ rm -f libhmsbeagle/libhmsbeagle_jni_la-beagle_BeagleJNIWrapper.lo
+ rm -f libhmsbeagle/libhmsbeagle_la-beagle.lo
+ rm -f libhmsbeagle/plugin/Makefile
+ rm -f libhmsbeagle/plugin/libplugin.la
+ rm -f libhmsbeagle/plugin/libplugin_la-Plugin.lo
+ rm -f libhmsbeagle/plugin/libplugin_la-UnixSharedLibrary.lo
+ rm -f libhmsbeagle/stamp-h1
+ rm -f libtool
+ rm -f aclocal.m4
+ rm -f m4/libtool.m4
+ rm -f m4/ltoptions.m4
+ rm -f m4/ltsugar.m4
+ rm -f m4/ltversion.m4
+ rm -f m4/lt~obsolete.m4
+
# Does not help to fix the lintian issue ... hmmm
#override_dh_shlibdeps:
