Attachment 190503 Details for Bug 225682 – Updated patch: biology/seqan-apps

[patch] Updated patch: biology/seqan-apps

seqan-apps.patch (text/plain), 2.60 KB, created by Yuri Victorovich on 2018-02-11 10:26:34 UTC

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Creator: Yuri Victorovich

Created: 2018-02-11 10:26:34 UTC

Size: 2.60 KB

patch

obsolete

>Index: biology/seqan-apps/Makefile
>===================================================================
>--- biology/seqan-apps/Makefile	(revision 461270)
>+++ biology/seqan-apps/Makefile	(working copy)
>@@ -2,13 +2,12 @@
> # $FreeBSD$
> 
> PORTNAME=	seqan-apps
>-PORTVERSION=	2.2.0
> DISTVERSIONPREFIX=	seqan-v
>-PORTREVISION=	9
>+DISTVERSION=	2.4.0
> CATEGORIES=	biology
> 
> MAINTAINER=	h2+fbsdports@fsfe.org
>-COMMENT=	Official Bioinformatic applications based on the SeqAn library
>+COMMENT=	Official bioinformatic applications based on the SeqAn library
> 
> LICENSE=	BSD3CLAUSE LGPL3 GPLv3
> LICENSE_COMB=	multi
>@@ -15,21 +14,17 @@
> 
> BUILD_DEPENDS=	boost-libs>0:devel/boost-libs
> 
>-BROKEN_aarch64=		fails to compile: Error: unknown mnemonic rep -- rep
>-BROKEN_armv6=		fails to compile: Error: bad instruction rep
>-BROKEN_armv7=		fails to compile: Error: bad instruction rep
>-BROKEN_powerpc64=	fails to compile: Error: unrecognized opcode: rep
>-
>+# once #199603 is resolved, add c++14-lang:
>+# USES=		cmake:outsource compiler:openmp,c++14-lang
>+USES=		cmake:outsource compiler:openmp
> USE_GITHUB=	yes
> GH_ACCOUNT=	seqan
> GH_PROJECT=	seqan
>-
>-# once #199603 is resolved, do the following instead of USE_GCC
>-# USES=		cmake:outsource compiler:openmp,c++14-lang
>-USES=		cmake:outsource
> CMAKE_ARGS=	-DSEQAN_BUILD_SYSTEM="SEQAN_RELEASE_APPS"
> 
>-USE_GCC=	yes
>+OPTIONS_DEFINE=	SSE4
>+SSE4_DESC= 	Use SSE4 and POPCNT instructions
>+SSE4_CMAKE_ON=	-DSEQAN_ARCH_SSE4:BOOL=TRUE
> 
> .include <bsd.port.pre.mk>
> 
>Index: biology/seqan-apps/distinfo
>===================================================================
>--- biology/seqan-apps/distinfo	(revision 461270)
>+++ biology/seqan-apps/distinfo	(working copy)
>@@ -1,3 +1,3 @@
>-TIMESTAMP = 1473848209
>-SHA256 (seqan-seqan-seqan-v2.2.0_GH0.tar.gz) = 6add074932c2723ef1fb658c88f906bdd6ced1fc34cb16a7410251ffc4cb8cc8
>-SIZE (seqan-seqan-seqan-v2.2.0_GH0.tar.gz) = 110936119
>+TIMESTAMP = 1517833288
>+SHA256 (seqan-seqan-seqan-v2.4.0_GH0.tar.gz) = d7084d17729214003e84818e0280a16f223c8f1c6a30eeef040c27e0c0047bd7
>+SIZE (seqan-seqan-seqan-v2.4.0_GH0.tar.gz) = 109626901
>Index: biology/seqan-apps/pkg-plist
>===================================================================
>--- biology/seqan-apps/pkg-plist	(revision 461270)
>+++ biology/seqan-apps/pkg-plist	(working copy)
>@@ -48,6 +48,7 @@
> bin/tree_recon
> bin/yara_indexer
> bin/yara_mapper
>+man/man1/sak.1.gz
> share/doc/alf/LICENSE
> share/doc/alf/README
> share/doc/alf/example/small.fasta
>@@ -117,7 +118,6 @@
> share/doc/sak/LICENSE
> share/doc/sak/README
> share/doc/sak/README.sak.txt
>-share/doc/sak/man/sak.1
> share/doc/sam2matrix/LICENSE
> share/doc/sam2matrix/README
> share/doc/samcat/LICENSE

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Attachments on bug 225682: 190337 | 190338 | 190502 | 190503 | 190628