Date: Wed, 10 Apr 2024 12:29:07 GMT From: "Jason W. Bacon" <jwb@FreeBSD.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org Subject: git: 8efa6a228307 - main - biology/minimap2: Update to 2.28 Message-ID: <202404101229.43ACT7ZS003960@gitrepo.freebsd.org>
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The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=8efa6a2283076e4e556d7796161c44b90f5b3aa8 commit 8efa6a2283076e4e556d7796161c44b90f5b3aa8 Author: Jason W. Bacon <jwb@FreeBSD.org> AuthorDate: 2024-04-10 12:28:02 +0000 Commit: Jason W. Bacon <jwb@FreeBSD.org> CommitDate: 2024-04-10 12:28:02 +0000 biology/minimap2: Update to 2.28 Fix --MD flag Add experimental lr:hqae Changes: https://github.com/lh3/minimap2/releases Reported by: portscout --- biology/minimap2/Makefile | 3 +-- biology/minimap2/distinfo | 6 +++--- biology/minimap2/files/patch-Makefile.simde | 6 +++--- biology/minimap2/pkg-plist | 2 +- 4 files changed, 8 insertions(+), 9 deletions(-) diff --git a/biology/minimap2/Makefile b/biology/minimap2/Makefile index df9552ac6ca0..2539d53f0969 100644 --- a/biology/minimap2/Makefile +++ b/biology/minimap2/Makefile @@ -1,7 +1,6 @@ PORTNAME= minimap2 DISTVERSIONPREFIX= v -DISTVERSION= 2.27 -PORTREVISION= 1 +DISTVERSION= 2.28 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org diff --git a/biology/minimap2/distinfo b/biology/minimap2/distinfo index 5a1bf73dfa7d..24b9f3d5dc0c 100644 --- a/biology/minimap2/distinfo +++ b/biology/minimap2/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1710332275 -SHA256 (lh3-minimap2-v2.27_GH0.tar.gz) = ca9ceb07e3b388858ebc2d7d91a6c74e996659402d16aa759ecedd63588b1ef7 -SIZE (lh3-minimap2-v2.27_GH0.tar.gz) = 259736 +TIMESTAMP = 1712360724 +SHA256 (lh3-minimap2-v2.28_GH0.tar.gz) = 5ea6683b4184b5c49f6dbaef2bc5b66155e405888a0790d1b21fd3c93e474278 +SIZE (lh3-minimap2-v2.28_GH0.tar.gz) = 260341 diff --git a/biology/minimap2/files/patch-Makefile.simde b/biology/minimap2/files/patch-Makefile.simde index aac7981c6b10..5d5e0ccf482c 100644 --- a/biology/minimap2/files/patch-Makefile.simde +++ b/biology/minimap2/files/patch-Makefile.simde @@ -1,4 +1,4 @@ ---- Makefile.simde.orig 2024-03-12 17:20:07 UTC +--- Makefile.simde.orig 2021-11-18 22:11:48 UTC +++ Makefile.simde @@ -1,13 +1,26 @@ -CFLAGS= -g -Wall -O2 -Wc++-compat #-Wextra @@ -21,7 +21,7 @@ LIBS= -lm -lz -lpthread +PREFIX?= /usr/local -+MAN1DIR?= ${PREFIX}/share/man/man1 ++MAN1DIR?= ${PREFIX}/man/man1 +DATADIR?= ${PREFIX}/share/minimap2 +MKDIR?= mkdir @@ -32,7 +32,7 @@ ifneq ($(arm_neon),) # if arm_neon is defined ifeq ($(aarch64),) #if aarch64 is not defined CFLAGS+=-D_FILE_OFFSET_BITS=64 -mfpu=neon -fsigned-char -@@ -26,7 +39,7 @@ endif +@@ -26,7 +39,7 @@ ifneq ($(tsan),) LIBS+=-fsanitize=thread endif diff --git a/biology/minimap2/pkg-plist b/biology/minimap2/pkg-plist index 742d1eb1b3f7..1d11d4c99c2f 100644 --- a/biology/minimap2/pkg-plist +++ b/biology/minimap2/pkg-plist @@ -1,7 +1,7 @@ bin/minimap2 bin/minimap2-lite bin/sdust -share/man/man1/minimap2.1.gz +man/man1/minimap2.1.gz %%DATADIR%%/test/MT-human.fa %%DATADIR%%/test/MT-orang.fa %%DATADIR%%/test/q-inv.fa
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