git: b66379cdc662 - main - biology/bwa: update 0.7.18 => 0.7.19

From: Fernando Apesteguía <fernape_at_FreeBSD.org>
Date: Wed, 26 Mar 2025 07:34:47 UTC 
The branch main has been updated by fernape:

URL: https://cgit.FreeBSD.org/ports/commit/?id=b66379cdc6620acb33e1e3bc32b77be597cad24b

commit b66379cdc6620acb33e1e3bc32b77be597cad24b
Author:     Älven <alster@vinterdalen.se>
AuthorDate: 2025-03-24 18:13:29 +0000
Commit:     Fernando Apesteguía <fernape@FreeBSD.org>
CommitDate: 2025-03-26 07:34:34 +0000

    biology/bwa: update 0.7.18 => 0.7.19
    
    ChangeLog:
    https://github.com/lh3/bwa/blob/master/NEWS.md#release-0719-22-march-2025
    
    Notable changes:
    
     * Bugfix: internal @HD lines. The bug was introduced in 0.7.18.
     * Merged #414, #391, #346, #312, #311, #308, #291, #288, #286 and #212
    
    PR:             285620
    Reported by:    alster@vinterdalen.se (maintainer)
---
 biology/bwa/Makefile             | 2 +-
 biology/bwa/distinfo             | 6 +++---
 biology/bwa/files/patch-Makefile | 6 +++---
 3 files changed, 7 insertions(+), 7 deletions(-)

diff --git a/biology/bwa/Makefile b/biology/bwa/Makefile
index 13316b89e355..3481077c3af3 100644
--- a/biology/bwa/Makefile
+++ b/biology/bwa/Makefile
@@ -1,6 +1,6 @@
 PORTNAME=	bwa
 DISTVERSIONPREFIX=	v
-DISTVERSION=	0.7.18
+DISTVERSION=	0.7.19
 CATEGORIES=	biology
 
 MAINTAINER=	alster@vinterdalen.se
diff --git a/biology/bwa/distinfo b/biology/bwa/distinfo
index b9b0548bf588..d6325d94fb62 100644
--- a/biology/bwa/distinfo
+++ b/biology/bwa/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1732300398
-SHA256 (lh3-bwa-v0.7.18_GH0.tar.gz) = 194788087f7b9a77c0114aa481b2ef21439f6abab72488c83917302e8d0e7870
-SIZE (lh3-bwa-v0.7.18_GH0.tar.gz) = 238036
+TIMESTAMP = 1742771512
+SHA256 (lh3-bwa-v0.7.19_GH0.tar.gz) = cdff5db67652c5b805a3df08c4e813a822c65791913eccfb3cf7d528588f37bc
+SIZE (lh3-bwa-v0.7.19_GH0.tar.gz) = 238518
diff --git a/biology/bwa/files/patch-Makefile b/biology/bwa/files/patch-Makefile
index e7d704d5e0b3..a48f921d7ddf 100644
--- a/biology/bwa/files/patch-Makefile
+++ b/biology/bwa/files/patch-Makefile
@@ -1,11 +1,11 @@
---- Makefile.orig	2014-05-19 13:11:41 UTC
+--- Makefile.orig	2025-03-22 18:55:09 UTC
 +++ Makefile
 @@ -1,6 +1,6 @@
 -CC=			gcc
 +CC?=			gcc
  #CC=			clang --analyze
--CFLAGS=		-g -Wall -Wno-unused-function -O2
-+CFLAGS?=		-g -Wall -Wno-unused-function -O2
+-CFLAGS=		-g -Wall -Wno-unused-function -O3
++CFLAGS?=		-g -Wall -Wno-unused-function -O3
  WRAP_MALLOC=-DUSE_MALLOC_WRAPPERS
  AR=			ar
  DFLAGS=		-DHAVE_PTHREAD $(WRAP_MALLOC)