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author | wen <wen@FreeBSD.org> | 2011-08-26 08:24:48 +0800 |
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committer | wen <wen@FreeBSD.org> | 2011-08-26 08:24:48 +0800 |
commit | 1d26c70ab26b54cb21f02fe857452cdbfe6ab16d (patch) | |
tree | 4ac371510b44bef4887e60260f52f5d31a116a2d | |
parent | 89081c0ea4ee9424f691d88d766aebd7b14792f5 (diff) | |
download | freebsd-ports-gnome-1d26c70ab26b54cb21f02fe857452cdbfe6ab16d.tar.gz freebsd-ports-gnome-1d26c70ab26b54cb21f02fe857452cdbfe6ab16d.tar.zst freebsd-ports-gnome-1d26c70ab26b54cb21f02fe857452cdbfe6ab16d.zip |
- Fix MASTER_SITES and WWW: line
- Add LICENSE
- Support CC/CFLAGS properly
PR: ports/160083
Submitted by: KATO Tsuguru <tkato432@yahoo.com>
-rw-r--r-- | biology/fastdnaml/Makefile | 24 | ||||
-rw-r--r-- | biology/fastdnaml/pkg-descr | 28 |
2 files changed, 19 insertions, 33 deletions
diff --git a/biology/fastdnaml/Makefile b/biology/fastdnaml/Makefile index 39a3c51d8e2a..57b0369bf71d 100644 --- a/biology/fastdnaml/Makefile +++ b/biology/fastdnaml/Makefile @@ -7,30 +7,28 @@ PORTNAME= fastdnaml PORTVERSION= 1.2.2 -PORTREVISION= 1 +PORTREVISION= 2 CATEGORIES= biology -MASTER_SITES= http://geta.life.uiuc.edu:80/~gary/programs/fastDNAml/ +MASTER_SITES= http://www.life.illinois.edu/gary/programs/fastDNAml/ DISTNAME= fastDNAml_${PORTVERSION} MAINTAINER= ports@FreeBSD.org COMMENT= Faster DNAML, makes phylogenetic trees using maximum likelihood -DEPRECATED= No more public distfiles -EXPIRATION_DATE= 2011-09-01 +LICENSE= GPLv2 # (or later) +LICENSE_FILE= ${WRKSRC}/GNU_GENERAL_PUBLIC_LICENSE -USE_GMAKE= yes -do-build: - @(cd ${WRKSRC}/source; ${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} ${MAKE_ARGS} ${ALL_TARGET}) +BUILD_WRKSRC= ${WRKSRC}/source + +MAKE_ARGS= CC="${CC}" CFLAGS="${CFLAGS}" do-install: - ${INSTALL_PROGRAM} ${WRKSRC}/source/fastDNAml ${PREFIX}/bin - ${MKDIR} ${PREFIX}/bin/${PORTNAME} + ${INSTALL_PROGRAM} ${BUILD_WRKSRC}/fastDNAml ${PREFIX}/bin + @${MKDIR} ${PREFIX}/bin/${PORTNAME} ${INSTALL_SCRIPT} ${WRKSRC}/scripts/* ${PREFIX}/bin/${PORTNAME} - -post-install: .if !defined(NOPORTDOCS) - ${MKDIR} ${PREFIX}/share/doc/${PORTNAME} - ${INSTALL_DATA} ${WRKSRC}/docs/*.txt ${PREFIX}/share/doc/${PORTNAME} + @${MKDIR} ${DOCSDIR} + ${INSTALL_DATA} ${WRKSRC}/docs/*.txt ${DOCSDIR} .endif .include <bsd.port.mk> diff --git a/biology/fastdnaml/pkg-descr b/biology/fastdnaml/pkg-descr index 391df7e37c84..92c534eac604 100644 --- a/biology/fastdnaml/pkg-descr +++ b/biology/fastdnaml/pkg-descr @@ -1,22 +1,10 @@ -fastDNAml is a program for estimating maximum likelihood phylogenetic trees -from nucleotide sequences. +fastDNAml is a program derived from Joseph Felsenstein's version 3.3 DNAML +(part of his PHYLIP package). Users should consult the documentation for +DNAML before using this program. -WWW: http://geta.life.uiuc.edu/~gary/programs/fastDNAml.html +fastDNAml is an attempt to solve the same problem as DNAML, but to do so +faster and using less memory, so that larger trees and/or more bootstrap +replicates become tractable. Much of fastDNAml is merely a recoding of the +PHYLIP 3.3 DNAML program from PASCAL to C. -fastDNAml is an attempt to solve the same problem as Joseph Felsenstein's -DNAML, but to do so faster and using less memory, so that larger trees and/or -more bootstrap replicates become tractable. Much of fastDNAml is merely a -recoding of the PHYLIP 3.3 DNAML program from PASCAL to C. - -For Felsenstein's phylogenetic analysis softwares, including the latest -versions of DNAML, visit the PHYLIP Home Page: - http://evolution.genetics.washington.edu/phylip.html - -When publishing work that based on results from fastDNAml please cite: - - Felsenstein, J. 1981. Evolutionary trees from DNA sequences: - A maximum likelihood approach. J. Mol. Evol. 17: 368-376. - - Olsen, G. J., Matsuda, H., Hagstrom, R., and Overbeek, R. 1994. - fastDNAml: A tool for construction of phylogenetic trees of DNA - sequences using maximum likelihood. Comput. Appl. Biosci. 10: 41-48. +WWW: http://www.life.illinois.edu/gary/programs/fastDNAml.html |