<pre style='margin:0'>
Frank Schima (mf2k) pushed a commit to branch master
in repository macports-ports.
</pre>
<p><a href="https://github.com/macports/macports-ports/commit/97f9dd83ce8e04129b3aeb8bd7b6d9f76a75e039">https://github.com/macports/macports-ports/commit/97f9dd83ce8e04129b3aeb8bd7b6d9f76a75e039</a></p>
<pre style="white-space: pre; background: #F8F8F8"><span style='display:block; white-space:pre;color:#808000;'>commit 97f9dd83ce8e04129b3aeb8bd7b6d9f76a75e039
</span>Author: Arjan van der Velde <vandervelde.ag@gmail.com>
AuthorDate: Tue Dec 26 13:43:05 2017 -0500
<span style='display:block; white-space:pre;color:#404040;'> bedtools: update to 2.27.1 (and remove patch)
</span>---
science/bedtools/Portfile | 9 ++++-----
science/bedtools/files/patch-Makefile.diff | 32 ------------------------------
2 files changed, 4 insertions(+), 37 deletions(-)
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/bedtools/Portfile b/science/bedtools/Portfile
</span><span style='display:block; white-space:pre;color:#808080;'>index 1a01edc..469f49e 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/bedtools/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/bedtools/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -3,7 +3,7 @@
</span> PortSystem 1.0
PortGroup github 1.0
<span style='display:block; white-space:pre;background:#ffe0e0;'>-github.setup arq5x bedtools2 2.27.0 v
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+github.setup arq5x bedtools2 2.27.1 v
</span>
name bedtools
categories science
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -18,8 +18,8 @@ long_description The BEDTools utilities allow one to address common genomics
</span> The utilities are largely based on four widely-used file formats: \
BED, GFF/GTF, VCF, and SAM/BAM.
<span style='display:block; white-space:pre;background:#ffe0e0;'>-checksums rmd160 7ad91cda54b8cc0ea3f0694bb0dbdf2276ae13e5 \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- sha256 b2ee7cd29983dad1665e60d194b5d6920ca5785cb1021692487ed1823b7491dc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+checksums rmd160 2a0fc10ce07f6228ee006e297577560bc24e35af \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ sha256 eb7028247d0e4732f113076fdbd580b8601365f7830cf19649d4d3116af08dfd
</span>
depends_build port:py27-sphinx
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -27,8 +27,7 @@ depends_lib port:zlib
</span>
use_configure no
<span style='display:block; white-space:pre;background:#ffe0e0;'>-patchfiles patch-docs-conf.py.diff \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- patch-Makefile.diff
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+patchfiles patch-docs-conf.py.diff
</span>
variant universal {}
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/bedtools/files/patch-Makefile.diff b/science/bedtools/files/patch-Makefile.diff
</span>deleted file mode 100644
<span style='display:block; white-space:pre;color:#808080;'>index ecf508b..0000000
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/bedtools/files/patch-Makefile.diff
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ /dev/null
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -1,32 +0,0 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.orig 2017-12-06 12:22:40.000000000 -0500
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile 2017-12-12 17:50:11.000000000 -0500
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -16,7 +16,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- export BIN_DIR = bin
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- export SRC_DIR = src
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- export UTIL_DIR = src/utils
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--export CXX ?= g++
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+export CXX = g++
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- ifeq ($(DEBUG),1)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- export CXXFLAGS = -Wall -Wextra -DDEBUG -D_DEBUG -g -O0 -D_FILE_OFFSET_BITS=64 -fPIC $(INCLUDES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- else
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -25,10 +25,9 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- # If the user has specified to do so, tell the compile to use rand() (instead of mt19937).
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- ifeq ($(USE_RAND),1)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--export CXXFLAGS = -DUSE_RAND
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+export CXXFLAGS += -DUSE_RAND
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- else
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--# Although we really want c++11, g++ 4.6.3 (as used by Travis) uses 'gnu++0x'
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--export CXXFLAGS = -std=gnu++0x
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+export CXXFLAGS += -std=c++11
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- endif
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- export LIBS = -lz
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -165,6 +164,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- print_banner:
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- @echo "Building BEDTools:"
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- @echo "========================================================="
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(info $$CXXFLAGS is [${CXXFLAGS}])
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- .PHONY: print_banner
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- # make the "obj/" and "bin/" directories, if they don't exist
</span></pre><pre style='margin:0'>
</pre>