<pre style='margin:0'>
Marcus Calhoun-Lopez (MarcusCalhoun-Lopez) pushed a commit to branch master
in repository macports-ports.
</pre>
<p><a href="https://github.com/macports/macports-ports/commit/9c0e6e775655e28cb3efd98b260015f63db823fd">https://github.com/macports/macports-ports/commit/9c0e6e775655e28cb3efd98b260015f63db823fd</a></p>
<pre style="white-space: pre; background: #F8F8F8"><span style='display:block; white-space:pre;color:#808000;'>commit 9c0e6e775655e28cb3efd98b260015f63db823fd
</span>Author: Marcus Calhoun-Lopez <mcalhoun@macports.org>
AuthorDate: Thu Mar 21 07:40:18 2019 -0700
<span style='display:block; white-space:pre;color:#404040;'> bowtie2: update version 2.3.4.3->2.3.5
</span>---
science/bowtie2/Portfile | 12 ++++++------
science/bowtie2/files/patch-src-Makefile.diff | 18 +++++++++---------
2 files changed, 15 insertions(+), 15 deletions(-)
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/bowtie2/Portfile b/science/bowtie2/Portfile
</span><span style='display:block; white-space:pre;color:#808080;'>index 9fc5699..8a0079b 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/bowtie2/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/bowtie2/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -3,8 +3,8 @@
</span> PortSystem 1.0
PortGroup github 1.0
<span style='display:block; white-space:pre;background:#ffe0e0;'>-github.setup BenLangmead bowtie2 2.3.4.3 v
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-revision 1
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+github.setup BenLangmead bowtie2 2.3.5 v
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+revision 0
</span>
categories science biology
platforms darwin
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -25,9 +25,9 @@ long_description Bowtie 2 is an ultrafast and memory-efficient tool \
</span>
homepage http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
<span style='display:block; white-space:pre;background:#ffe0e0;'>-checksums rmd160 ee47b07eaacdb1319ec83c9f01ff46a7c9900933 \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- sha256 56cf132e1607cb16397c294f0ba1a288aba4eddc1dc10f7ce3e92796f9b1fbc5 \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- size 10574624
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+checksums rmd160 23e5c52efd92f79acfd9ab20deb8e984f504d18b \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ sha256 5e9eda577fb3494c652b34f9c02fe92a049c4fc1e5efda9e438a1085d4f8c998 \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ size 10585285
</span>
patchfiles patch-src-Makefile.diff
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -62,7 +62,7 @@ post-destroot {
</span> xinstall -m 644 -W ${worksrcpath} \
VERSION \
TUTORIAL \
<span style='display:block; white-space:pre;background:#ffe0e0;'>- README \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ README.md \
</span> NEWS \
MANUAL.markdown \
MANUAL \
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/bowtie2/files/patch-src-Makefile.diff b/science/bowtie2/files/patch-src-Makefile.diff
</span><span style='display:block; white-space:pre;color:#808080;'>index e6bc250..9d73943 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/bowtie2/files/patch-src-Makefile.diff
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/bowtie2/files/patch-src-Makefile.diff
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -1,5 +1,5 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.orig 2018-09-16 21:22:55.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile 2019-01-17 05:35:04.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.orig 2019-03-15 21:14:43.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile 2019-03-21 07:23:21.000000000 -0700
</span> @@ -21,6 +21,9 @@
# Makefile for bowtie, bowtie2-build, bowtie2-inspect
#
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -10,7 +10,7 @@
</span> prefix := /usr/local
bindir := $(prefix)/bin
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -55,12 +58,6 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -57,12 +60,6 @@
</span> MACOS :=
ifneq (,$(findstring Darwin,$(shell uname)))
MACOS := 1
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -22,13 +22,13 @@
</span> - endif
endif
<span style='display:block; white-space:pre;background:#ffe0e0;'>- POPCNT_CAPABILITY ?= 1
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -186,8 +183,8 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- SSE_FLAG := -msse2
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ ifdef STATIC_BUILD
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -224,8 +221,8 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ M64_FLAG =
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ endif
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>--DEBUG_FLAGS := -O0 -g3 -m64 $(SSE_FLAG)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--RELEASE_FLAGS := -O3 -m64 $(SSE_FLAG) -funroll-loops -g3
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-DEBUG_FLAGS := -O0 -g3 $(M64_FLAG) $(SSE_FLAG)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-RELEASE_FLAGS := -O3 $(M64_FLAG) $(SSE_FLAG) -funroll-loops -g3
</span> +DEBUG_FLAGS := $(SSE_FLAG)
+RELEASE_FLAGS := $(SSE_FLAG)
NOASSERT_FLAGS := -DNDEBUG
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