git: 2c95e6006b12 - main - biology/hyphy: Update to 2.5.77

The branch main has been updated by jrm:

URL: https://cgit.FreeBSD.org/ports/commit/?id=2c95e6006b12cb65d01c1d10ebd402d7985649ff

commit 2c95e6006b12cb65d01c1d10ebd402d7985649ff
Author:     Joseph Mingrone <jrm@FreeBSD.org>
AuthorDate: 2025-08-17 16:56:18 +0000
Commit:     Joseph Mingrone <jrm@FreeBSD.org>
CommitDate: 2025-08-17 16:56:18 +0000

    biology/hyphy: Update to 2.5.77
    
    Release notes:  https://github.com/veg/hyphy/releases/tag/2.5.77
    Sponsored by:   The FreeBSD Foundation
---
 biology/hyphy/Makefile                   |  2 +-
 biology/hyphy/distinfo                   |  6 +++---
 biology/hyphy/files/patch-CMakeLists.txt | 27 ---------------------------
 3 files changed, 4 insertions(+), 31 deletions(-)

diff --git a/biology/hyphy/Makefile b/biology/hyphy/Makefile
index 9c44e24985ad..e9632df3e987 100644
--- a/biology/hyphy/Makefile
+++ b/biology/hyphy/Makefile
@@ -1,5 +1,5 @@
 PORTNAME=	hyphy
-DISTVERSION=	2.5.76
+DISTVERSION=	2.5.77
 CATEGORIES=	biology
 
 MAINTAINER=	jrm@FreeBSD.org
diff --git a/biology/hyphy/distinfo b/biology/hyphy/distinfo
index 3bcc8e9eb6fe..7a055e3a0004 100644
--- a/biology/hyphy/distinfo
+++ b/biology/hyphy/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1755289798
-SHA256 (veg-hyphy-2.5.76_GH0.tar.gz) = d3f649b304e6ed408ee25f568de8361d43fb0a20d689243eba227d63fe6926ae
-SIZE (veg-hyphy-2.5.76_GH0.tar.gz) = 4027248
+TIMESTAMP = 1755447505
+SHA256 (veg-hyphy-2.5.77_GH0.tar.gz) = 5012efd40938caeb9894bbd480565f95d735840f8eac67c6e84884a347e32e76
+SIZE (veg-hyphy-2.5.77_GH0.tar.gz) = 4027226
diff --git a/biology/hyphy/files/patch-CMakeLists.txt b/biology/hyphy/files/patch-CMakeLists.txt
deleted file mode 100644
index 0c926e529c55..000000000000
--- a/biology/hyphy/files/patch-CMakeLists.txt
+++ /dev/null
@@ -1,27 +0,0 @@
---- CMakeLists.txt.orig	2025-08-15 20:40:45 UTC
-+++ CMakeLists.txt
-@@ -83,7 +83,7 @@ int main() {
-     if(HYPHY_HAVE_NEON)
-         add_compile_definitions(_SLKP_USE_ARM_NEON)
-         if(CMAKE_CXX_COMPILER_ID MATCHES "GNU" OR CMAKE_CXX_COMPILER_ID MATCHES "Clang")
--            list(APPEND HYPHY_SIMD_FLAGS "-mcpu=native;-mtune=native")
-+            list(APPEND HYPHY_SIMD_FLAGS "-mtune=native")
-         endif()
-     endif()
-     set(CMAKE_REQUIRED_FLAGS ${OLD_CMAKE_REQUIRED_FLAGS})
-@@ -91,7 +91,7 @@ if(CMAKE_CXX_COMPILER_ID MATCHES "GNU" OR CMAKE_CXX_CO
- 
- if(CMAKE_CXX_COMPILER_ID MATCHES "GNU" OR CMAKE_CXX_COMPILER_ID MATCHES "Clang")
-     if(NOT HYPHY_HAVE_NEON AND NOT CMAKE_SYSTEM_NAME STREQUAL "Emscripten")
--        list(APPEND COMMON_COMPILE_FLAGS "-march=native" "-mcpu=native" "-mtune=native")
-+        list(APPEND COMMON_COMPILE_FLAGS "-march=native" "-mtune=native")
-     endif()
-     if(NOT NOAVX)
-         set(OLD_CMAKE_REQUIRED_FLAGS ${CMAKE_REQUIRED_FLAGS})
-@@ -332,4 +332,4 @@ add_test(NAME GARD COMMAND hyphy tests/hbltests/libv3/
- add_test(CONTRAST-FEL hyphy tests/hbltests/libv3/CFEL.wbf)
- add_test(FADE hyphy tests/hbltests/libv3/FADE.wbf)
- add_test(NAME GARD COMMAND hyphy tests/hbltests/libv3/GARD.wbf "ENV=TOLERATE_NUMERICAL_ERRORS=1;")
--add_test(ABSREL hyphy tests/hbltests/libv3/ABSREL.wbf)
-\ No newline at end of file
-+add_test(ABSREL hyphy tests/hbltests/libv3/ABSREL.wbf)