git: a881e9d0c3cc - main - biology/mmseqs2: Fix runtime error when built with clang

[Jason W. Bacon]

The branch main has been updated by jwb:

URL: https://cgit.FreeBSD.org/ports/commit/?id=a881e9d0c3ccd79a71282e2e239cfbf2c22107f7

commit a881e9d0c3ccd79a71282e2e239cfbf2c22107f7
Author:     Jason W. Bacon <jwb at FreeBSD.org>
AuthorDate: 2021-06-29 14:04:48 +0000
Commit:     Jason W. Bacon <jwb at FreeBSD.org>
CommitDate: 2021-06-29 14:04:48 +0000

    biology/mmseqs2: Fix runtime error when built with clang
    
    Disable IPS4O to avoid deadlocks (upstream developer fix)
    Removing USE_GCC should fix pkg build errors caused by
---
 biology/mmseqs2/Makefile | 8 ++------
 1 file changed, 2 insertions(+), 6 deletions(-)

diff --git a/biology/mmseqs2/Makefile b/biology/mmseqs2/Makefile
index 755ed6f7aaa0..2ca647d74995 100644
--- a/biology/mmseqs2/Makefile
+++ b/biology/mmseqs2/Makefile
@@ -1,6 +1,6 @@
 PORTNAME=	MMseqs2
 DISTVERSION=	13-45111
-PORTREVISION=	1
+PORTREVISION=	2
 CATEGORIES=	biology
 
 MAINTAINER=	jwb at FreeBSD.org
@@ -20,18 +20,14 @@ USE_PERL5=	build
 SHEBANG_GLOB=	*.sh
 GH_ACCOUNT=	soedinglab
 
-CMAKE_ARGS+=	-DUSE_SYSTEM_ZSTD:BOOL=ON
+CMAKE_ARGS+=	-DUSE_SYSTEM_ZSTD:BOOL=ON -DDISABLE_IPS4O:BOOL=ON
 LDFLAGS+=	-lpthread
 
 PLIST_FILES=	bin/mmseqs ${DATADIR}/bash-completion.sh
 
 .include <bsd.port.pre.mk>
 
-# Hangs when built with clang and SSE or x86-64 only.  Works fine with
-# -march=native.  Upstream is investigating.  To build fully optimized,
-# non-portable binary with clang: env CFLAGS='-O2 -march=native' make
 .if ${ARCH} == "amd64" && empty(CFLAGS:M*march=native*)
-USE_GCC=	yes
 # Need at least SSE2 for decent performance.  x86-64 groups SSE2 with other
 # common features in low-end AMD64 CPUs.
 CFLAGS+=	-march=x86-64