BSD Ports

biology/bamutil 1.0.15 FreeBSD

Utilities for working with SAM/BAM files

System
FreeBSD
Repository
FreeBSD ports
Maintainer
[email protected]
Last update
Commit
2414383046
License
GPLv3
Categories
biology
Package size
314.0 KiB, 949.3 KiB installed

Description

Utilities for working on SAM/BAM files from The Center for Statistical Genetics at the University of Michigan School of Public Health. It includes numerous functions such as splitting, merging, trimming reads, filtering, validation, diff, etc.

In the other systems

SystemPortVersion
FreeBSDbiology/bamutil1.0.15
DragonFlybiology/bamutil1.0.15
HardenedBSDbiology/bamutil1.0.15
GhostBSDbiology/bamutil1.0.15

Install

Binary package:

pkg install bamutil

From the ports tree:

cd /usr/ports/biology/bamutil/ && make install clean

To depend on this port in another port's Makefile:

RUN_DEPENDS=	bamutil>0:biology/bamutil

Packages

The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.

Repositoryaarch64amd64armv6armv7i386
FreeBSD:14:latest1.0.151.0.151.0.151.0.151.0.15
FreeBSD:14:quarterly1.0.151.0.15n/a1.0.151.0.15
FreeBSD:15:latest1.0.151.0.15n/a1.0.151.0.15
FreeBSD:15:quarterly1.0.151.0.15n/an/an/a
FreeBSD:16:latest1.0.151.0.15n/an/an/a
FreeBSD:16:quarterlyn/an/an/an/an/a

Dependencies

The Makefile names none itself; they come from USES and USE_*.

The full lists below include those, and their dependencies in turn.

Build dependencies 3
Required by 1

Configuration

No options to configure.

USES
gmake
Service scripts
none
Conflicts with
bam

Files

distinfo 2
FileSizeSHA256
statgen-bamUtil-v1.0.15_GH0.tar.gz1.92915e+0624ac4bdb81eded6e33f60dba85ec3d32ebdb06d42f75df775c2632bbfbd8cce9
statgen-libStatGen-v1.0.15_GH0.tar.gz560782075dcd891409c48d76c0c66186c0cc479bc3cd50bba093e7f318e1d1d19961ff

Commit history 1

DateCommitCreditsLog message
2414383046 Jason W. Bacon Release numerous ports to ports@
I've been retired for a few years, and it is unlikely I will be doing any more scientific computing support in the future. I have continued to maintain ~160 ports to the best of my ability, mainly as a favor to the community, but I can no longer justify the time and effort required. I am therefore releasing most of my scientific ports, along with a few others, to ports@. I will continue to maintain ports I am actively using and those for which I am upstream.