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| author | Matthew Seaman <matthew@FreeBSD.org> | 2016-06-09 01:39:58 +0000 |
|---|---|---|
| committer | Matthew Seaman <matthew@FreeBSD.org> | 2016-06-09 01:39:58 +0000 |
| commit | 7a2d475f5ad9e27144a4df8c88ea71cc71456b14 (patch) | |
| tree | 0dfa1580a97dd33fb35a6bb45f6a38b6c542b36d /biology | |
| parent | 2be1d46a5f11301f3437eb4680d10c601f7999ba (diff) | |
| download | ports-7a2d475f5ad9e27144a4df8c88ea71cc71456b14.tar.gz ports-7a2d475f5ad9e27144a4df8c88ea71cc71456b14.zip | |
Notes
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/diamond/Makefile | 11 | ||||
| -rw-r--r-- | biology/diamond/distinfo | 5 | ||||
| -rw-r--r-- | biology/diamond/files/patch-CMakeLists.txt | 36 |
3 files changed, 18 insertions, 34 deletions
diff --git a/biology/diamond/Makefile b/biology/diamond/Makefile index 64e0f3b59ffa..8125f301f7cc 100644 --- a/biology/diamond/Makefile +++ b/biology/diamond/Makefile @@ -2,9 +2,8 @@ # $FreeBSD$ PORTNAME= diamond -PORTVERSION= 0.7.12 +PORTVERSION= 0.8.5 DISTVERSIONPREFIX= v -PORTREVISION= 1 CATEGORIES= biology MAINTAINER= jrm@ftfl.ca @@ -12,11 +11,9 @@ COMMENT= BLAST-compatible local sequence aligner LICENSE= BSD2CLAUSE -LIB_DEPENDS= libboost_system.so:devel/boost-libs - ONLY_FOR_ARCHS= amd64 -USES= cmake:outsource +USES= cmake:outsource compiler:c++11-lang CFLAGS+= -DNDEBUG @@ -25,4 +22,8 @@ GH_ACCOUNT= bbuchfink PLIST_FILES= bin/diamond +.if ! defined(PACKAGE_BUILDING) +CXXFLAGS+=-march=native +.endif + .include <bsd.port.mk> diff --git a/biology/diamond/distinfo b/biology/diamond/distinfo index 9fc724f22800..8579488cc0c0 100644 --- a/biology/diamond/distinfo +++ b/biology/diamond/distinfo @@ -1,2 +1,3 @@ -SHA256 (bbuchfink-diamond-v0.7.12_GH0.tar.gz) = 16f8f618e4e5e81071ef8b66dc39685a1e969434ddeff3d88fa01091971b662f -SIZE (bbuchfink-diamond-v0.7.12_GH0.tar.gz) = 1826614 +TIMESTAMP = 1464949238 +SHA256 (bbuchfink-diamond-v0.8.5_GH0.tar.gz) = 8ba092647af7c980ddd83acc6686acd2ba18744774c669027859dbaec644fda3 +SIZE (bbuchfink-diamond-v0.8.5_GH0.tar.gz) = 203133 diff --git a/biology/diamond/files/patch-CMakeLists.txt b/biology/diamond/files/patch-CMakeLists.txt index 167cf967e353..7ac5dbedcd72 100644 --- a/biology/diamond/files/patch-CMakeLists.txt +++ b/biology/diamond/files/patch-CMakeLists.txt @@ -1,33 +1,15 @@ ---- CMakeLists.txt.orig 2016-03-29 09:23:52 UTC +--- CMakeLists.txt.orig 2016-05-29 16:12:02 UTC +++ CMakeLists.txt -@@ -9,6 +9,7 @@ if(BUILD_STATIC) +@@ -9,12 +9,6 @@ if(BUILD_STATIC) set(CMAKE_EXE_LINKER_FLAGS "-static") endif() -+FIND_PACKAGE(Threads REQUIRED) - find_package(Boost - 1.53.0 REQUIRED - COMPONENTS program_options timer iostreams thread -@@ -16,9 +17,6 @@ find_package(Boost - - find_package(ZLIB REQUIRED) - --set(CMAKE_BUILD_TYPE Release) --set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wall -Wno-uninitialized") +-include(CheckCXXCompilerFlag) +-CHECK_CXX_COMPILER_FLAG("-march=native" COMPILER_SUPPORTS_MARCHNATIVE) +-if(COMPILER_SUPPORTS_MARCHNATIVE) +- set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -march=native") +-endif() - - add_subdirectory("src/algo/blast/core") - include_directories( - "${CMAKE_SOURCE_DIR}/src" -@@ -29,6 +27,11 @@ add_executable(diamond src/main.cpp - src/basic/options.cpp - src/util/tinythread.cpp) - --target_link_libraries(diamond blast_core ${Boost_LIBRARIES} ${ZLIB_LIBRARY}) -+target_link_libraries(diamond blast_core ${Boost_LIBRARIES} ${CMAKE_THREAD_LIBS_INIT} ${ZLIB_LIBRARY}) + find_package(ZLIB REQUIRED) + find_package(Threads REQUIRED) - install(TARGETS diamond DESTINATION bin) -+ -+get_cmake_property(_variableNames VARIABLES) -+foreach (_variableName ${_variableNames}) -+ message(STATUS "${_variableName}=${${_variableName}}") -+endforeach() |