diff options
| author | Ruslan Makhmatkhanov <rm@FreeBSD.org> | 2015-09-25 18:34:29 +0000 |
|---|---|---|
| committer | Ruslan Makhmatkhanov <rm@FreeBSD.org> | 2015-09-25 18:34:29 +0000 |
| commit | 2b9505d069bc93046314a9fd6d4718c3c77a4280 (patch) | |
| tree | 270ceac59b6706ee2b139099ecaa979682c8283f /biology | |
| parent | The FASTX-Toolkit is a collection of command line tools for Short-Reads (diff) | |
FastTree infers approximately-maximum-likelihood phylogenetic trees from
alignments of nucleotide or protein sequences. FastTree can handle alignments
with up to a million of sequences in a reasonable amount of time and memory.
WWW: http://www.microbesonline.org/fasttree/
PR: 203295
Submitted by: Jason Bacon <jwbacon@tds.net>
Notes
Notes:
svn path=/head/; revision=397848
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/fasttree/Makefile | 33 | ||||
| -rw-r--r-- | biology/fasttree/distinfo | 2 | ||||
| -rw-r--r-- | biology/fasttree/pkg-descr | 5 |
4 files changed, 41 insertions, 0 deletions
diff --git a/biology/Makefile b/biology/Makefile index 77e6807b8b87..7572974676a5 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -20,6 +20,7 @@ SUBDIR += fasta SUBDIR += fasta3 SUBDIR += fastdnaml + SUBDIR += fasttree SUBDIR += fastx-toolkit SUBDIR += fluctuate SUBDIR += garlic diff --git a/biology/fasttree/Makefile b/biology/fasttree/Makefile new file mode 100644 index 000000000000..0fbca3f6dba6 --- /dev/null +++ b/biology/fasttree/Makefile @@ -0,0 +1,33 @@ +# Created by: Jason Bacon <jwbacon@tds.net> +# $FreeBSD$ + +PORTNAME= FastTree +PORTVERSION= 2.1.8 +CATEGORIES= biology +MASTER_SITES= http://www.microbesonline.org/fasttree/ +EXTRACT_SUFX= .c + +MAINTAINER= jwbacon@tds.net +COMMENT= Approximately-maximum-likelihood phylogenetic trees from alignments + +# LICENSE= unspecified open source + +USES= compiler:openmp + +CFLAGS+= -DOPENMP -fopenmp -O3 -finline-functions -funroll-loops +LDFLAGS+= -lm + +PLIST_FILES= bin/FastTree + +do-extract: + ${MKDIR} ${WRKSRC} + ${CP} ${DISTDIR}/${DISTFILES} ${WRKSRC} + +do-build: + cd ${WRKSRC} && ${CC} ${CFLAGS} -o FastTree ${DISTFILES} ${LDFLAGS} + +do-install: + ${MKDIR} ${STAGEDIR}${PREFIX}/bin + ${INSTALL_PROGRAM} ${WRKSRC}/FastTree ${STAGEDIR}${PREFIX}/bin + +.include <bsd.port.mk> diff --git a/biology/fasttree/distinfo b/biology/fasttree/distinfo new file mode 100644 index 000000000000..abd99c4d0c3c --- /dev/null +++ b/biology/fasttree/distinfo @@ -0,0 +1,2 @@ +SHA256 (FastTree-2.1.8.c) = b172d160f1b12b764d21a6937c3ce01ba42fa8743d95e083e031c6947762f837 +SIZE (FastTree-2.1.8.c) = 385231 diff --git a/biology/fasttree/pkg-descr b/biology/fasttree/pkg-descr new file mode 100644 index 000000000000..c8b02a9d8466 --- /dev/null +++ b/biology/fasttree/pkg-descr @@ -0,0 +1,5 @@ +FastTree infers approximately-maximum-likelihood phylogenetic trees from +alignments of nucleotide or protein sequences. FastTree can handle alignments +with up to a million of sequences in a reasonable amount of time and memory. + +WWW: http://www.microbesonline.org/fasttree/ |