Compilation issue related to SSE instructions

[alexeigurevich]

Hi Heng,

I've just tested minimap2 compilation in various settings and found a small issue on Ubuntu 32bit virtual machine with GCC 5.2.1.
Initially, I got a bunch of errors like:

In file included from ksw2_ll_sse.c:4:0:
/usr/lib/gcc/i686-linux-gnu/5/include/emmintrin.h:1180:1: error: inlining failed in call to always_inline ‘_mm_srli_si128’: target specific option mismatch
 _mm_srli_si128 (__m128i __A, const int __N)
 ^

First, I tried the suggested solution from README file and ran make sse2only=1. However, this did not help. Note that the errors are occurring during ksw2_ll_sse.o compilation which is required independently from sse2only value.

The solution which helped me was to update Makefile first line
CFLAGS= -g -Wall -O2 -Wc++-compat
with one more option: -msse2 (it also works with some other alternatives, e.g. -msse4.1).

Do you think it make sense to add this or similar option to Makefile permanently?

[lh3]

Thanks! I haven't used 32-bit machines (virtual or not) for some years and haven't paid attention to this issue. I have made some changes to Makefile via a22ebb9. Let me know if that works.

[alexeigurevich]

Now it working, thanks!