New port, biology/iqtree: Efficient phylogenomic software
WWW: http://www.iqtree.org/
This commit is contained in:
parent
ee28374909
commit
1027ca2f40
Notes:
svn2git
2021-03-31 03:12:20 +00:00
svn path=/head/; revision=452595
4 changed files with 43 additions and 0 deletions
|
@ -37,6 +37,7 @@
|
|||
SUBDIR += hmmer
|
||||
SUBDIR += htslib
|
||||
SUBDIR += iolib
|
||||
SUBDIR += iqtree
|
||||
SUBDIR += jalview
|
||||
SUBDIR += jellyfish
|
||||
SUBDIR += lagan
|
||||
|
|
24
biology/iqtree/Makefile
Normal file
24
biology/iqtree/Makefile
Normal file
|
@ -0,0 +1,24 @@
|
|||
# $FreeBSD$
|
||||
|
||||
PORTNAME= iqtree
|
||||
DISTVERSIONPREFIX= v
|
||||
DISTVERSION= 1.6.beta4
|
||||
CATEGORIES= biology
|
||||
|
||||
MAINTAINER= jrm@FreeBSD.org
|
||||
COMMENT= Efficient phylogenomic software by maximum likelihood
|
||||
|
||||
LICENSE= GPLv2
|
||||
LICENSE_FILE= ${WRKSRC}/LICENSE
|
||||
|
||||
BUILD_DEPENDS= ${LOCALBASE}/libdata/pkgconfig/eigen3.pc:math/eigen3
|
||||
RUN_DEPENDS= ${LOCALBASE}/libdata/pkgconfig/eigen3.pc:math/eigen3
|
||||
|
||||
USES= cmake compiler:openmp
|
||||
USE_GITHUB= yes
|
||||
GH_ACCOUNT= Cibiv
|
||||
|
||||
PLIST_FILES= bin/iqtree example.cf example.nex example.phy models.nex
|
||||
WRKSRC= ${WRKDIR}/IQ-TREE-${DISTVERSION}
|
||||
|
||||
.include <bsd.port.mk>
|
3
biology/iqtree/distinfo
Normal file
3
biology/iqtree/distinfo
Normal file
|
@ -0,0 +1,3 @@
|
|||
TIMESTAMP = 1508602968
|
||||
SHA256 (Cibiv-iqtree-v1.6.beta4_GH0.tar.gz) = 78ff4cb03140aa36f5e057e0182f304e83f46cb729e09a1ef08ce9720bcce04f
|
||||
SIZE (Cibiv-iqtree-v1.6.beta4_GH0.tar.gz) = 4450460
|
15
biology/iqtree/pkg-descr
Normal file
15
biology/iqtree/pkg-descr
Normal file
|
@ -0,0 +1,15 @@
|
|||
IQ-TREE is efficient and versatile phylogenomic software, created as the
|
||||
successor of IQPNNI and TREE-PUZZLE (thus the name IQ-TREE). Development was
|
||||
motivated by the rapid accumulation of phylogenomic data, leading to a need for
|
||||
efficient phylogenomic software that can handle a large amount of data and
|
||||
provide more complex models of sequence evolution. To this end, IQ-TREE can
|
||||
utilize multicore computers and distributed parallel computing to speed up the
|
||||
analysis. IQ-TREE automatically performs checkpointing to resume an interrupted
|
||||
analysis.
|
||||
|
||||
As input IQ-TREE accepts all common sequence alignment formats including PHYLIP,
|
||||
FASTA, Nexus, Clustal and MSF. As output IQ-TREE will write a self-readable
|
||||
report file (name suffix .iqtree), a NEWICK tree file (.treefile) which can be
|
||||
visualized by tree viewer programs such as FigTree, Dendroscope or iTOL.
|
||||
|
||||
WWW: http://www.iqtree.org/
|
Loading…
Reference in a new issue