<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/ee6b37819ac4666687f59bae82b9f7ee93b88572">https://github.com/macports/macports-ports/commit/ee6b37819ac4666687f59bae82b9f7ee93b88572</a></p>
<pre style="white-space: pre; background: #F8F8F8"><span style='display:block; white-space:pre;color:#808000;'>commit ee6b37819ac4666687f59bae82b9f7ee93b88572
</span>Author: Marcus Calhoun-Lopez <mcalhoun@macports.org>
AuthorDate: Fri Feb 28 04:00:42 2020 -0700
<span style='display:block; white-space:pre;color:#404040;'> bowtie2: update version 2.3.5.1->2.4.0
</span>---
science/bowtie2/Portfile | 17 +++++++++--------
science/bowtie2/files/patch-src-Makefile.diff | 16 ++++++++--------
2 files changed, 17 insertions(+), 16 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 b7222db..e57daa9 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 2.3.5.1 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 2.4.0 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;'>@@ -25,18 +25,18 @@ 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 32fd950a84a901edc8db34a9939c2a7e8c82b8ef \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- sha256 663c8d44bea5532a8096d66414885e98f8077177959518015948db034fbdb280 \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- size 10587306
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+checksums rmd160 a887a93c8f3d16d770fc3b50952148fa029d79b4 \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ sha256 682479e14c8a33f966315d642a62a5fd3937c67ba75b1782c8a9bf8271622a61 \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ size 10588708
</span>
patchfiles patch-src-Makefile.diff
<span style='display:block; white-space:pre;background:#ffe0e0;'>-set python.version 27
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+set python.version 38
</span> set python_ver_dot [join [split ${python.version} {}] "."]
post-patch {
reinplace -W ${worksrcpath} \
<span style='display:block; white-space:pre;background:#ffe0e0;'>- "s|^#!/usr/bin/env python\$|#!${prefix}/bin/python${python_ver_dot}|" \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ "s|^#!/usr/bin/env python3\$|#!${prefix}/bin/python${python_ver_dot}|" \
</span> bowtie2-build \
bowtie2-inspect
}
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -44,6 +44,7 @@ post-patch {
</span> use_configure no
supported_archs x86_64
installs_libs no
<span style='display:block; white-space:pre;background:#e0ffe0;'>+compiler.cxx_standard 2011
</span>
depends_lib-append port:zlib \
port:tbb
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -58,7 +59,7 @@ build.env-append CXX=${configure.cxx} \
</span> "CXXFLAGS=${configure.cxxflags} [get_canonical_archflags cxx]" \
"LDFLAGS=${configure.ldflags} [get_canonical_archflags ld]"
<span style='display:block; white-space:pre;background:#ffe0e0;'>-destroot.args-append prefix=${prefix}
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+destroot.args-append PREFIX=${prefix}
</span>
post-destroot {
xinstall -m 755 \
<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 d16f6b7..41d66bc 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;'>@@ -1,15 +1,15 @@
</span> --- Makefile.orig 2019-03-15 21:14:43.000000000 -0700
+++ Makefile 2019-03-21 07:23:21.000000000 -0700
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -57,12 +60,6 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -52,12 +52,6 @@
</span> MACOS :=
ifneq (,$(findstring Darwin,$(shell uname)))
<span style='display:block; white-space:pre;background:#ffe0e0;'>- MACOS := 1
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- ifeq (1,$(shell uname -r | awk -F. '{ if ($$1 > 12 && $$1 < 16) print 1; }'))
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- CXXFLAGS += -stdlib=libstdc++
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- endif
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- ifdef STATIC_BUILD
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- CXXFLAGS += -mmacosx-version-min=10.9
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- endif
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ MACOS := 1
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+- ifeq (1,$(shell uname -r | awk -F. '{ if ($$1 > 12 && $$1 < 16) print 1; }'))
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+- CXXFLAGS += -stdlib=libstdc++
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+- endif
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+- ifdef STATIC_BUILD
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+- CXXFLAGS += -mmacosx-version-min=10.9
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+- endif
</span> endif
ifdef STATIC_BUILD
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