biology/flash 1.2.11 FreeBSD

Fast Length Adjustment of SHort reads

System: FreeBSD
Repository: FreeBSD ports
Maintainer: [email protected]
Last update: 2026-10-08
Commit: 2414383046
License: GPLv3
Categories: biology
Package size: 38.6 KiB, 106.7 KiB installed

Description

FLASH (Fast Length Adjustment of SHort reads) is a very fast and accurate software tool to merge paired-end reads from next-generation sequencing experiments. FLASH is designed to merge pairs of reads when the original DNA fragments are shorter than twice the length of reads. The resulting longer reads can significantly improve genome assemblies. They can also improve transcriptome assembly when FLASH is used to merge RNA-seq data.

In the other systems

System

Port

Version

FreeBSD

biology/flash

1.2.11

DragonFly

biology/flash

1.2.11

Install

Binary package:

pkg install flash

From the ports tree:

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

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

RUN_DEPENDS=	flash>0:biology/flash

Packages

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

Repository	aarch64	amd64	armv6	armv7	i386
FreeBSD:14:latest	1.2.11	1.2.11	1.2.11	1.2.11	1.2.11
FreeBSD:14:quarterly	1.2.11	1.2.11	n/a	1.2.11	1.2.11
FreeBSD:15:latest	1.2.11	1.2.11	n/a	1.2.11	1.2.11
FreeBSD:15:quarterly	1.2.11	1.2.11	n/a	n/a	n/a
FreeBSD:16:latest	1.2.11	1.2.11	n/a	n/a	n/a
FreeBSD:16:quarterly	n/a	n/a	n/a	n/a	n/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

biology/biostar-tools

Configuration

No options to configure.

USES: gmake
Service scripts: none

Files

distinfo 1

File

Size

SHA256

FLASH-1.2.11.tar.gz

48889

685ca6f7fedda07434d8ee03c536f4763385671c4509c5bb48beb3055fd236ac

Master sites 1

http://ccb.jhu.edu/software/FLASH/

Commit history 1

Date Commit Credits Log message

2026-10-08

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.