mirror/freebsd-ports
1
0
Fork 0
mirror of https://git.FreeBSD.org/ports.git synced 2024-11-20 00:21:35 +00:00
Code Issues Releases Activity

MUMmer is a modular system for the rapid whole genome alignment of finished

Browse Source 
or draft sequence. This package provides an efficient suffix tree library,
seed-and-extend alignment, SNP detection, repeat detection, and
visualization tools.

WWW:	http://mummer.sourceforge.net/

PR:		ports/118142
Submitted by:	Tony Maher
This commit is contained in:
Martin Wilke 2007-12-14 20:54:47 +00:00
parent 255190e3c1
commit 9326ebd9c8
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=203638
5 changed files with 79 additions and 0 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

1
biology/Makefile
View File

@ -46,6 +46,7 @@
SUBDIR += migrate
SUBDIR += molden
SUBDIR += mopac
SUBDIR += mummer
SUBDIR += nab
SUBDIR += ncbi-toolkit
SUBDIR += ortep3

43
biology/mummer/Makefile Normal file
View File

@ -0,0 +1,43 @@
# ex:ts=8
# New ports collection makefile for: MUMmer
# Date created: 20 November 2007
# Whom: Tony Maher
#
# $FreeBSD$
#
PORTNAME= mummer
PORTVERSION= 3.20
CATEGORIES= biology
MASTER_SITES= SF
DISTNAME= MUMmer${PORTVERSION}
MAINTAINER= Anthony.Maher@uts.edu.au
COMMENT= A modular system for rapid whole genome alignment
USE_GMAKE= yes
PROGRAMS= annotate combineMUMs delta-filter gaps \
mgaps mummer repeat-match show-aligns \
show-coords show-diff show-snps show-tiling
SCRIPTS= dnadiff exact-tandems mapview mummerplot nucmer \
nucmer2xfig promer run-mummer1 run-mummer3
DOCUMENTS= COPYRIGHT INSTALL LICENSE README
do-install:
.for program in ${PROGRAMS}
(cd ${WRKSRC} && ${INSTALL_PROGRAM} ${program} ${PREFIX}/bin)
.endfor
.for script in ${SCRIPTS}
(cd ${WRKSRC} && ${INSTALL_SCRIPT} ${script} ${PREFIX}/bin)
.endfor
.if !defined(NOPORTDOCS)
@${MKDIR} ${DOCSDIR}
.for doc in ${DOCUMENTS}
(cd ${WRKSRC} && ${INSTALL_DATA} ${doc} ${DOCSDIR})
.endfor
.endif
.include <bsd.port.mk>

3
biology/mummer/distinfo Normal file
View File

@ -0,0 +1,3 @@
MD5 (MUMmer3.20.tar.gz) = 4c3f6e528df50f8dfd3a7cd0ea224306
SHA256 (MUMmer3.20.tar.gz) = 9c7880b4ce25ef3c6bed9ccdc26f1c4d7e74eb0ef1ce403907790c0f96c0f260
SIZE (MUMmer3.20.tar.gz) = 3155446

6
biology/mummer/pkg-descr Normal file
View File

@ -0,0 +1,6 @@
MUMmer is a modular system for the rapid whole genome alignment of finished
or draft sequence. This package provides an efficient suffix tree library,
seed-and-extend alignment, SNP detection, repeat detection, and
visualization tools.
WWW: http://mummer.sourceforge.net/

26
biology/mummer/pkg-plist Normal file
View File

@ -0,0 +1,26 @@
bin/annotate
bin/combineMUMs
bin/delta-filter
bin/dnadiff
bin/exact-tandems
bin/gaps
bin/mapview
bin/mgaps
bin/mummer
bin/mummerplot
bin/nucmer
bin/nucmer2xfig
bin/promer
bin/repeat-match
bin/run-mummer1
bin/run-mummer3
bin/show-aligns
bin/show-coords
bin/show-diff
bin/show-snps
bin/show-tiling
%%PORTDOCS%%%%DOCSDIR%%/COPYRIGHT
%%PORTDOCS%%%%DOCSDIR%%/INSTALL
%%PORTDOCS%%%%DOCSDIR%%/LICENSE
%%PORTDOCS%%%%DOCSDIR%%/README
%%PORTDOCS%%@dirrm %%DOCSDIR%%