Attachment 11062 Details for Bug 21931 – file.shar

file.shar

file.shar (text/plain), 4.18 KB, created by Motomichi Matsuzaki on 2000-10-12 13:20:01 UTC

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Creator: Motomichi Matsuzaki

Created: 2000-10-12 13:20:01 UTC

Size: 4.18 KB

patch

obsolete

># This is a shell archive.  Save it in a file, remove anything before
># this line, and then unpack it by entering "sh file".  Note, it may
># create directories; files and directories will be owned by you and
># have default permissions.
>#
># This archive contains:
>#
>#	biol/fastdnaml
>#	biol/fastdnaml/Makefile
>#	biol/fastdnaml/distinfo
>#	biol/fastdnaml/pkg-comment
>#	biol/fastdnaml/pkg-descr
>#	biol/fastdnaml/pkg-plist
>#
>echo c - biol/fastdnaml
>mkdir -p biol/fastdnaml > /dev/null 2>&1
>echo x - biol/fastdnaml/Makefile
>sed 's/^X//' >biol/fastdnaml/Makefile << 'END-of-biol/fastdnaml/Makefile'
>X# New ports collection makefile for:	fastDNAml
>X# Date created:		12 Oct 2000
>X# Whom:	      		Motomichi Matsuzaki <mzaki@e-mail.ne.jp>
>X#
>X# $FreeBSD$
>X#
>X
>XPORTNAME=	fastdnaml
>XPORTVERSION=	1.2.2
>XCATEGORIES=	biology
>XMASTER_SITES=	http://geta.life.uiuc.edu:80/~gary/programs/fastDNAml/
>XDISTNAME=	fastDNAml_${PORTVERSION}
>X
>XMAINTAINER=	mzaki@e-mail.ne.jp
>X
>Xdo-build:
>X	@(cd ${WRKSRC}/source; ${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} ${MAKE_ARGS} ${ALL_TARGET})
>X
>Xdo-install:
>X	${INSTALL_PROGRAM} ${WRKSRC}/source/fastDNAml ${PREFIX}/bin
>X	${MKDIR} ${PREFIX}/bin/${PORTNAME}
>X	${INSTALL_SCRIPT} ${WRKSRC}/scripts/* ${PREFIX}/bin/${PORTNAME}
>X
>Xpost-install:
>X.if !defined(NOPORTDOCS)
>X	${MKDIR} ${PREFIX}/share/doc/${PORTNAME}
>X	${INSTALL_MAN} ${WRKSRC}/docs/*.txt ${PREFIX}/share/doc/${PORTNAME}
>X.endif
>X
>X.include <bsd.port.mk>
>END-of-biol/fastdnaml/Makefile
>echo x - biol/fastdnaml/distinfo
>sed 's/^X//' >biol/fastdnaml/distinfo << 'END-of-biol/fastdnaml/distinfo'
>XMD5 (fastDNAml_1.2.2.tar.gz) = dd9c737e0f433879500391d0e229f763
>END-of-biol/fastdnaml/distinfo
>echo x - biol/fastdnaml/pkg-comment
>sed 's/^X//' >biol/fastdnaml/pkg-comment << 'END-of-biol/fastdnaml/pkg-comment'
>XThe faster variant of DNAML, makes phylogenetic trees using maximum likelihood
>END-of-biol/fastdnaml/pkg-comment
>echo x - biol/fastdnaml/pkg-descr
>sed 's/^X//' >biol/fastdnaml/pkg-descr << 'END-of-biol/fastdnaml/pkg-descr'
>XfastDNAml is a program for estimating maximum likelihood phylogenetic trees
>Xfrom nucleotide sequences. 
>X
>XWWW: http://geta.life.uiuc.edu/~gary/programs/fastDNAml.html
>X
>XfastDNAml is an attempt to solve the same problem as Joseph Felsenstein's
>XDNAML, but to do so faster and using less memory, so that larger trees and/or
>Xmore bootstrap replicates become tractable. Much of fastDNAml is merely a
>Xrecoding of the PHYLIP 3.3 DNAML program from PASCAL to C. 
>X
>XFor Felsenstein's phylogenetic analysis softwares, including the latest
>Xversions of DNAML, visit the PHYLIP Home Page:
>X	http://evolution.genetics.washington.edu/phylip.html
>X
>XWhen publishing work that based on results from fastDNAml please cite:
>X
>X   Felsenstein, J.  1981.  Evolutionary trees from DNA sequences:
>X   A maximum likelihood approach.  J. Mol. Evol. 17: 368-376.
>X
>X   Olsen, G. J., Matsuda, H., Hagstrom, R., and Overbeek, R.  1994.
>X   fastDNAml:  A tool for construction of phylogenetic trees of DNA
>X   sequences using maximum likelihood.  Comput. Appl. Biosci. 10: 41-48.
>END-of-biol/fastdnaml/pkg-descr
>echo x - biol/fastdnaml/pkg-plist
>sed 's/^X//' >biol/fastdnaml/pkg-plist << 'END-of-biol/fastdnaml/pkg-plist'
>Xbin/fastDNAml
>Xbin/fastdnaml/ae2dnaml
>Xbin/fastdnaml/bootstrap
>Xbin/fastdnaml/categories
>Xbin/fastdnaml/categories_file
>Xbin/fastdnaml/checkpoint_summary
>Xbin/fastdnaml/clean_checkpoints
>Xbin/fastdnaml/clean_jumbles
>Xbin/fastdnaml/dnaml_progress
>Xbin/fastdnaml/fastDNAml_boot
>Xbin/fastdnaml/fastDNAml_loop
>Xbin/fastdnaml/frequencies
>Xbin/fastdnaml/global
>Xbin/fastdnaml/iterate_rates
>Xbin/fastdnaml/jumble
>Xbin/fastdnaml/min_info
>Xbin/fastdnaml/n_categories
>Xbin/fastdnaml/n_files
>Xbin/fastdnaml/out.PID
>Xbin/fastdnaml/outgroup
>Xbin/fastdnaml/printdata
>Xbin/fastdnaml/quickadd
>Xbin/fastdnaml/restart
>Xbin/fastdnaml/scores
>Xbin/fastdnaml/transition
>Xbin/fastdnaml/treefile
>Xbin/fastdnaml/treefile2prolog
>Xbin/fastdnaml/trees2NEXUS
>Xbin/fastdnaml/trees2prolog
>Xbin/fastdnaml/userlengths
>Xbin/fastdnaml/usertree
>Xbin/fastdnaml/usertrees
>Xbin/fastdnaml/weights
>Xbin/fastdnaml/weights_categories
>Xshare/doc/fastdnaml/fastDNAml_doc_1.2.txt
>Xshare/doc/fastdnaml/fastDNAml_scripts.txt
>X@dirrm bin/fastdnaml
>X@dirrm share/doc/fastdnaml
>END-of-biol/fastdnaml/pkg-plist
>exit

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Attachments on bug 21931: 11062