diff options
| author | Jason W. Bacon <jwb@FreeBSD.org> | 2023-01-21 22:30:48 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2023-01-21 22:30:48 +0000 |
| commit | 65ce3f1684bc6a0457bfc55feb059baf76bbee2a (patch) | |
| tree | c5cf91c5eadaffd123bd9efc0b42d9c51ec2e40d | |
| parent | b4a06438206bac164a7ac4efdc2465540f952414 (diff) | |
| download | ports-65ce3f1684bc6a0457bfc55feb059baf76bbee2a.tar.gz ports-65ce3f1684bc6a0457bfc55feb059baf76bbee2a.zip | |
biology/bowtie2: Update to 2.5.1
A few minor fixes and enhancements
Changes: https://github.com/BenLangmead/bowtie2/tags
Reported by: portscout
| -rw-r--r-- | biology/bowtie2/Makefile | 2 | ||||
| -rw-r--r-- | biology/bowtie2/distinfo | 6 | ||||
| -rw-r--r-- | biology/bowtie2/files/patch-Makefile | 28 |
3 files changed, 9 insertions, 27 deletions
diff --git a/biology/bowtie2/Makefile b/biology/bowtie2/Makefile index b227373a69b0..14777fb43760 100644 --- a/biology/bowtie2/Makefile +++ b/biology/bowtie2/Makefile @@ -1,6 +1,6 @@ PORTNAME= bowtie2 DISTVERSIONPREFIX= v -DISTVERSION= 2.5.0 +DISTVERSION= 2.5.1 CATEGORIES= biology perl5 python MAINTAINER= jwb@FreeBSD.org diff --git a/biology/bowtie2/distinfo b/biology/bowtie2/distinfo index 1ebf87291129..69c8b6900f9a 100644 --- a/biology/bowtie2/distinfo +++ b/biology/bowtie2/distinfo @@ -1,5 +1,5 @@ -TIMESTAMP = 1667400686 -SHA256 (BenLangmead-bowtie2-v2.5.0_GH0.tar.gz) = 55dedeba8bea240d3ce3f46211d6e14310035c1de5a3e9ac33f72f739165fea0 -SIZE (BenLangmead-bowtie2-v2.5.0_GH0.tar.gz) = 10598633 +TIMESTAMP = 1674338476 +SHA256 (BenLangmead-bowtie2-v2.5.1_GH0.tar.gz) = 3fe00f4f89b5dd85fd9317e2168ec93f30dbb75d7950a08516c767d21eca7c27 +SIZE (BenLangmead-bowtie2-v2.5.1_GH0.tar.gz) = 10598627 SHA256 (simd-everywhere-simde-no-tests-f6a0b3b_GH0.tar.gz) = 9874f22afe8a6cd92770aa194df47db3d0963d80ea233a502b0d557f59763eb8 SIZE (simd-everywhere-simde-no-tests-f6a0b3b_GH0.tar.gz) = 397743 diff --git a/biology/bowtie2/files/patch-Makefile b/biology/bowtie2/files/patch-Makefile index 23bb0fae0c58..abbe01f5f982 100644 --- a/biology/bowtie2/files/patch-Makefile +++ b/biology/bowtie2/files/patch-Makefile @@ -1,29 +1,11 @@ ---- Makefile.orig 2022-11-01 01:53:08 UTC +--- Makefile.orig 2023-01-21 21:59:18 UTC +++ Makefile -@@ -32,7 +32,7 @@ BOWTIE_SHARED_MEM := - - CXXFLAGS += -std=c++11 - --ARCH = $(shell uname -m) -+ARCH = $(shell uname -p) - NGS_VER ?= 2.9.2 - VDB_VER ?= 2.9.2-1 - -@@ -62,7 +62,7 @@ ifneq (,$(findstring Darwin,$(shell uname))) +@@ -61,7 +61,7 @@ ifneq (,$(findstring Darwin,$(shell uname))) endif BITS := 32 --ifneq (,$(findstring $(shell uname -m), x86_64 amd64)) -+ifneq (,$(findstring $(shell uname -p), x86_64 amd64)) +-ARCH ?= $(shell uname -m) ++ARCH ?= $(shell uname -p) + ifneq (,$(findstring $(ARCH), x86_64 amd64)) BITS := 64 ifeq (1, $(SSE_AVX2)) - SSE_FLAG := -mavx2 -faligned-new -DSSE_AVX2 -@@ -71,7 +71,7 @@ ifneq (,$(findstring $(shell uname -m), x86_64 amd64)) - endif - - POPCNT_CAPABILITY ?= 1 --else ifneq (,$(findstring $(shell uname -m), aarch64 arm64 s390x ppc64 ppc64le)) -+else ifneq (,$(findstring $(shell uname -p), aarch64 arm64 s390x powerpc64 powerpc64le ppc64 ppc64le)) - BITS := 64 - SSE_FLAG := - CXXFLAGS += -fopenmp-simd |