svn commit: r474558 - in head/biology: . exonerate

[Yuri Victorovich]

Author: yuri
Date: Fri Jul 13 07:02:16 2018
New Revision: 474558
URL: https://svnweb.freebsd.org/changeset/ports/474558

Log:
  New port: biology/exonerate: Generic tool for sequence alignment
  
  PR:		229180
  Submitted by:	Motomichi Matsuzaki <mzaki at niid.go.jp>

Added:
  head/biology/exonerate/
  head/biology/exonerate/Makefile   (contents, props changed)
  head/biology/exonerate/distinfo   (contents, props changed)
  head/biology/exonerate/pkg-descr   (contents, props changed)
  head/biology/exonerate/pkg-plist   (contents, props changed)
Modified:
  head/biology/Makefile

Modified: head/biology/Makefile
==============================================================================
--- head/biology/Makefile	Fri Jul 13 07:02:16 2018	(r474557)
+++ head/biology/Makefile	Fri Jul 13 07:02:16 2018	(r474558)
@@ -26,6 +26,7 @@
     SUBDIR += ddocent
     SUBDIR += diamond
     SUBDIR += emboss
+    SUBDIR += exonerate
     SUBDIR += fasta
     SUBDIR += fasta3
     SUBDIR += fastahack

Added: head/biology/exonerate/Makefile
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/exonerate/Makefile	Fri Jul 13 07:02:16 2018	(r474558)
@@ -0,0 +1,22 @@
+# Created by: Motomichi Matsuzaki <mzaki at niid.go.jp>
+# $FreeBSD$
+
+PORTNAME=	exonerate
+PORTVERSION=	2.4.0
+CATEGORIES=	biology
+MASTER_SITES=	http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/
+
+MAINTAINER=	mzaki at niid.go.jp
+COMMENT=	Generic tool for sequence alignment
+
+LICENSE=	GPLv3
+LICENSE_FILE=	${WRKSRC}/COPYING
+
+USES=		gnome pkgconfig
+GNU_CONFIGURE=	yes
+USE_GNOME=	glib20
+TEST_TARGET=	check
+
+MAKE_JOBS_UNSAFE=	yes
+
+.include <bsd.port.mk>

Added: head/biology/exonerate/distinfo
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/exonerate/distinfo	Fri Jul 13 07:02:16 2018	(r474558)
@@ -0,0 +1,3 @@
+TIMESTAMP = 1529394154
+SHA256 (exonerate-2.4.0.tar.gz) = f849261dc7c97ef1f15f222e955b0d3daf994ec13c9db7766f1ac7e77baa4042
+SIZE (exonerate-2.4.0.tar.gz) = 520899

Added: head/biology/exonerate/pkg-descr
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/exonerate/pkg-descr	Fri Jul 13 07:02:16 2018	(r474558)
@@ -0,0 +1,10 @@
+Exonerate is a tool for various types of pairwise sequence comparison.
+It allows us to align sequences using many alignment models including
+est2genome, protein2genome, and so on.
+
+Citation:
+
+Slater, G. S. C. and Birney, E. (2005) Automated generation of heuristics
+for biological sequence comparison. BMC Bioinformatics 6:31.
+
+WWW: https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate

Added: head/biology/exonerate/pkg-plist
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/exonerate/pkg-plist	Fri Jul 13 07:02:16 2018	(r474558)
@@ -0,0 +1,31 @@
+bin/exonerate
+bin/ipcress
+bin/exonerate-server
+bin/fastaclean
+bin/fastaclip
+bin/fastachecksum
+bin/fastacomposition
+bin/fastadiff
+bin/fastaexplode
+bin/fastafetch
+bin/fastahardmask
+bin/fastaindex
+bin/fastalength
+bin/fastanrdb
+bin/fastaoverlap
+bin/fastareformat
+bin/fastaremove
+bin/fastarevcomp
+bin/fastasoftmask
+bin/fastasort
+bin/fastasplit
+bin/fastasubseq
+bin/fastatranslate
+bin/fastavalidcds
+bin/fasta2esd
+bin/fastaannotatecdna
+bin/esd2esi
+man/man1/exonerate-server.1.gz
+man/man1/fastautils.1.gz
+man/man1/exonerate.1.gz
+man/man1/ipcress.1.gz