Re: Help with new version of iqtree needed
Hi James,
thanks for the fast response:
On Thu, Mar 10, 2016 at 01:49:23PM +0000, James Cowgill wrote:
> On Thu, 2016-03-10 at 14:39 +0100, Andreas Tille wrote:
> > Hi,
> >
> > I#m facing a C++ problem with the new version of iqtree. If I build the
> > current state in Git[1] I get:
> >
> > ...
> > [ 7%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o
> > cd /build/iqtree-1.4.0+dfsg/obj-x86_64-linux-gnu/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -D__SSE3 -I/build/iqtree-1.4.0+dfsg -I/build/iqtree-1.4.0+dfsg/obj-x86_64-linux-gnu -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/iqtree-1.4.0+dfsg/pll/evaluateGenericSpecial.c
> > In file included from /build/iqtree-1.4.0+dfsg/pll/evaluateGenericSpecial.c:46:0:
> > /build/iqtree-1.4.0+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined
> > extern __inline unsigned int bitcount_64_bit(uint64_t i);
> > ^
> > In file included from /build/iqtree-1.4.0+dfsg/pll/pll.h:79:0,
> > from /build/iqtree-1.4.0+dfsg/pll/mem_alloc.h:16,
> > from /build/iqtree-1.4.0+dfsg/pll/evaluateGenericSpecial.c:31:
> > /build/iqtree-1.4.0+dfsg/pll/evaluateGenericSpecial.c: In function 'evaluateGTRCATPROT':
> > /usr/lib/gcc/x86_64-linux-gnu/5/include/pmmintrin.h:86:1: error: inlining failed in call to always_inline '_mm_hadd_pd': target specific option mismatch
> > _mm_hadd_pd (__m128d __X, __m128d __Y)
> > ^
>
> _mm_hadd_pd is a sse3 intrinsic so you have to pass -msse3 to allow GCC
> to use it. However, this will cause a SIGILL on any amd64/i386
> processor without sse3 so instead the code should be replaced with
> something more portable.
Since I have no idea about SSE my attempt to fix #813436 obviously
triggered this problem. I admit I have no idea how to deal with this
sensibly.
Kind regards
Andreas.
--
http://fam-tille.de
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