git: b902f8f425a4 - main - biology/fastp: Update to 0.26.0

The branch main has been updated by jwb:

URL: https://cgit.FreeBSD.org/ports/commit/?id=b902f8f425a4f7e3e8196c3f30857f7208c3d0ee

commit b902f8f425a4f7e3e8196c3f30857f7208c3d0ee
Author:     Jason W. Bacon <jwb@FreeBSD.org>
AuthorDate: 2025-06-07 12:28:25 +0000
Commit:     Jason W. Bacon <jwb@FreeBSD.org>
CommitDate: 2025-06-07 12:28:25 +0000

    biology/fastp: Update to 0.26.0
    
    Improve adapter detection and trimming
    Changes: https://github.com/OpenGene/fastp/releases
    New maintainer: hayzam@alchemilla.io
    
    Reported by:    portscout
---
 biology/fastp/Makefile             |  4 ++--
 biology/fastp/distinfo             |  6 +++---
 biology/fastp/files/patch-Makefile | 15 +++++++++------
 3 files changed, 14 insertions(+), 11 deletions(-)

diff --git a/biology/fastp/Makefile b/biology/fastp/Makefile
index fadcb2fbec61..7d91034eb87c 100644
--- a/biology/fastp/Makefile
+++ b/biology/fastp/Makefile
@@ -1,9 +1,9 @@
 PORTNAME=		fastp
 DISTVERSIONPREFIX=	v
-DISTVERSION=		0.25.0
+DISTVERSION=		0.26.0
 CATEGORIES=		biology
 
-MAINTAINER=	jwb@FreeBSD.org
+MAINTAINER=	hayzam@alchemilla.io
 COMMENT=	Ultra-fast all-in-one FASTQ preprocessor
 WWW=		https://github.com/OpenGene/fastp
 
diff --git a/biology/fastp/distinfo b/biology/fastp/distinfo
index 8d1d45fdddba..6abdf5196be5 100644
--- a/biology/fastp/distinfo
+++ b/biology/fastp/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1748779414
-SHA256 (OpenGene-fastp-v0.25.0_GH0.tar.gz) = 55fa7d9b8166200e901ff59a1825ba6455ec1a322d9465ce40aae6d145c3146f
-SIZE (OpenGene-fastp-v0.25.0_GH0.tar.gz) = 164959
+TIMESTAMP = 1749236354
+SHA256 (OpenGene-fastp-v0.26.0_GH0.tar.gz) = ab5396f448bece92e599e4d3acc48751fc46f0f43333ca271d229aa95dc47c4e
+SIZE (OpenGene-fastp-v0.26.0_GH0.tar.gz) = 166500
diff --git a/biology/fastp/files/patch-Makefile b/biology/fastp/files/patch-Makefile
index 5e68e39804a1..09efd133c6d8 100644
--- a/biology/fastp/files/patch-Makefile
+++ b/biology/fastp/files/patch-Makefile
@@ -1,4 +1,4 @@
---- Makefile.orig	2025-04-16 10:13:35 UTC
+--- Makefile.orig	2025-06-06 00:03:48 UTC
 +++ Makefile
 @@ -7,6 +7,8 @@ LIBRARY_DIRS ?=
  INCLUDE_DIRS ?=
@@ -9,14 +9,15 @@
  SRC := $(wildcard ${DIR_SRC}/*.cpp)
  OBJ := $(patsubst %.cpp,${DIR_OBJ}/%.o,$(notdir ${SRC}))
  
-@@ -15,15 +17,20 @@ CXX ?= g++
+@@ -15,15 +17,21 @@ CXX ?= g++
  BIN_TARGET := ${TARGET}
  
  CXX ?= g++
 -CXXFLAGS := -std=c++11 -pthread -g -O3 -MD -MP -I${DIR_INC} $(foreach includedir,$(INCLUDE_DIRS),-I$(includedir)) ${CXXFLAGS}
 +# Optional flags that the user can override by setting CXXFLAGS in the
-+# env or make argument
-+CXXFLAGS ?= -g -O3
++# env or make argument.  -pthread is a link flag, and serves no purpose
++# in the compile command.  It is handled by -lpthread in LIBS.
++CXXFLAGS ?= -g -O3 -MD -MP
 +# Required flags
 +CXXFLAGS += -std=c++11 -I${DIR_INC} $(foreach includedir,$(INCLUDE_DIRS),-I$(includedir))
  LIBS := -lisal -ldeflate -lpthread
@@ -33,11 +34,13 @@
  
  static:${OBJ}
  	$(CXX) $(OBJ) -o ${BIN_TARGET} $(STATIC_LD_FLAGS)
-@@ -38,8 +45,13 @@ clean:
+@@ -38,8 +46,15 @@ clean:
  	@rm -rf $(DIR_OBJ)
  	@rm -f $(TARGET)
  
-+# Respect DESTDIR for staged installs (used by most package managers)
++# Respect DESTDIR for staged installs (used by most package managers).
++# DESTDIR is empty by default, so this will install directly to BINDIR
++# unless DESTDIR is supplied by the user.
  install:
 -	install $(TARGET) $(BINDIR)/$(TARGET)
 +	install $(TARGET) $(DESTDIR)$(BINDIR)/$(TARGET)