Module Name: pkgsrc-wip
Committed By: Jason Bacon <bacon@centosdev.local>
Pushed By: outpaddling
Date: Wed Mar 29 18:24:55 2017 -0500
Changeset: 4721a22f09945561a347f4c31792fd684134c4a8
Modified Files:
Makefile
Added Files:
vsearch/DESCR
vsearch/Makefile
vsearch/PLIST
vsearch/TODO
vsearch/distinfo
vsearch/patches/patch-src_city.cc
Log Message:
'Add vsearch: Versatile open-source tool for metagenomics'
To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=4721a22f09945561a347f4c31792fd684134c4a8
Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.
diffstat:
Makefile | 1 +
vsearch/DESCR | 1 +
vsearch/Makefile | 29 +++++++++++++++++++++++++++++
vsearch/PLIST | 3 +++
vsearch/TODO | 1 +
vsearch/distinfo | 7 +++++++
vsearch/patches/patch-src_city.cc | 20 ++++++++++++++++++++
7 files changed, 62 insertions(+)
diffs:
diff --git a/Makefile b/Makefile
index 10da36f0a5..e4180459cb 100644
--- a/Makefile
+++ b/Makefile
@@ -4348,6 +4348,7 @@ SUBDIR+= vncselector
SUBDIR+= vpnc
SUBDIR+= vpr
SUBDIR+= vreng
+SUBDIR+= vsearch
SUBDIR+= vte
SUBDIR+= wackamole
SUBDIR+= waffle
diff --git a/vsearch/DESCR b/vsearch/DESCR
new file mode 100644
index 0000000000..2f422d319a
--- /dev/null
+++ b/vsearch/DESCR
@@ -0,0 +1 @@
+Versatile open-source tool for metagenomics.
diff --git a/vsearch/Makefile b/vsearch/Makefile
new file mode 100644
index 0000000000..30f0412bdd
--- /dev/null
+++ b/vsearch/Makefile
@@ -0,0 +1,29 @@
+# $NetBSD$
+#
+###########################################################
+# Generated by fbsd2pkg #
+# Fri May 20 17:39:48 CDT 2016 #
+###########################################################
+
+DISTNAME= vsearch-${PORTVERSION}
+CATEGORIES= biology
+MASTER_SITES= ${MASTER_SITE_GITHUB:=torognes/}
+GITHUB_PROJECT= vsearch
+GITHUB_TAG= v${PORTVERSION}
+
+MAINTAINER= bacon4000%gmail.com@localhost
+HOMEPAGE= https://github.com/torognes/vsearch
+COMMENT= Versatile open-source tool for metagenomics
+LICENSE= gnu-gpl-v3
+
+USE_LANGUAGES= c c++
+USE_TOOLS+= autoconf automake autoreconf gmake
+GNU_CONFIGURE= yes
+CONFIGURE_ARGS+= --disable-pdfman
+
+PORTVERSION= 2.4.2
+
+pre-configure:
+ cd ${WRKSRC} && autoreconf -fi
+
+.include "../../mk/bsd.pkg.mk"
diff --git a/vsearch/PLIST b/vsearch/PLIST
new file mode 100644
index 0000000000..5fccaabb18
--- /dev/null
+++ b/vsearch/PLIST
@@ -0,0 +1,3 @@
+@comment $NetBSD$
+bin/vsearch
+man/man1/vsearch.1
diff --git a/vsearch/TODO b/vsearch/TODO
new file mode 100644
index 0000000000..b687356e6b
--- /dev/null
+++ b/vsearch/TODO
@@ -0,0 +1 @@
+Clean up and test
diff --git a/vsearch/distinfo b/vsearch/distinfo
new file mode 100644
index 0000000000..096364eb18
--- /dev/null
+++ b/vsearch/distinfo
@@ -0,0 +1,7 @@
+$NetBSD$
+
+SHA1 (vsearch-2.4.2.tar.gz) = b11c32391da4c1b2476b8e13915be619e099613b
+RMD160 (vsearch-2.4.2.tar.gz) = 0f4b6ef5911a9e84dd664f93a5e5fd757be82da4
+SHA512 (vsearch-2.4.2.tar.gz) = e4652a9df664f2ba519364c880716c753045976084b9ba2c1aad1c46c967172bbb78537f9110a49c1719c5b7274f854c918fb123aa52fed866c1a04c52751554
+Size (vsearch-2.4.2.tar.gz) = 201460 bytes
+SHA1 (patch-src_city.cc) = bfe1c8cf6da32aef6f45dc47da1adb8197711090
diff --git a/vsearch/patches/patch-src_city.cc b/vsearch/patches/patch-src_city.cc
new file mode 100644
index 0000000000..06085bfefc
--- /dev/null
+++ b/vsearch/patches/patch-src_city.cc
@@ -0,0 +1,20 @@
+$NetBSD$
+
+# Handle non-standardized swap macros
+
+--- src/city.cc.orig 2016-01-25 19:23:36 UTC
++++ src/city.cc
+@@ -69,6 +69,13 @@ static uint32 UNALIGNED_LOAD32(const cha
+ #define bswap_64(x) bswap64(x)
+ #endif
+
++#elif defined(__FreeBSD__)
++
++#define bswap_32(x) bswap32(x)
++#define bswap_64(x) bswap64(x)
++
++#include <sys/endian.h>
++
+ #else
+
+ #include <byteswap.h>