BSD Portsbiology/plink 1.90.b6.17_6 FreeBSD
Whole genome association analysis toolset
- System
- FreeBSD
- Repository
- FreeBSD ports
- Maintainer
- [email protected]
- License
- GPLv3
- Categories
- biology
Description
PLINK is a widely used toolset for genome-wide association studies (GWAS) and research in population genetics.
Citation: Chang et al. (2015) Second-generation PLINK: rising to the challenge of larger and richer datasets. GigaScience 4(1) doi:10.1186/s13742-015-0047-8
In the other systems
| System | Port | Version |
|---|---|---|
| FreeBSD | biology/plink | 1.90.b6.17_6 |
| NetBSD | biology/plink | 1.07nb1 |
| DragonFly | biology/plink | 1.90.b6.17_5 |
| HardenedBSD | biology/plink | 1.90.b6.17_6 |
| GhostBSD | biology/plink | 1.90.b6.17_6 |
Install
Binary package:
pkg install plinkFrom the ports tree:
cd /usr/ports/biology/plink/ && make install cleanTo depend on this port in another port's Makefile:
RUN_DEPENDS= plink>0:biology/plinkPackages
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 | - | 1.90.b6.17_6 | - | 1.90.b6.17_5 | 1.90.b6.17_6 |
| FreeBSD:14:quarterly | - | 1.90.b6.17_6 | n/a | 1.90.b6.17_5 | 1.90.b6.17_6 |
| FreeBSD:15:latest | - | 1.90.b6.17_6 | n/a | 1.90.b6.17_5 | 1.90.b6.17_5 |
| FreeBSD:15:quarterly | - | 1.90.b6.17_6 | n/a | n/a | n/a |
| FreeBSD:16:latest | - | 1.90.b6.17_6 | 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 11
Run dependencies 9
No port depends on this one.
Configuration
Options name: biology_plink
| Option | Default | Description |
|---|---|---|
| EXAMPLES | off | Build and/or install examples |
| NETLIB | off | Netlib's reference |
| OPENBLAS | on | OpenBLAS BLAS implementation |
- USES
- gmake fortran
- Service scripts
- none
- Conflicts with
- putty putty-nogtk
Files
pkg-plist 4
- bin/plink
- bin/prettify
- share/examples/plink/toy.map
- share/examples/plink/toy.ped
distinfo 1
| File | Size | SHA256 |
|---|---|---|
| chrchang-plink-ng-v1.90b6.17-79b2df8c_GH0.tar.gz | 3.013121e+06 | 1207dcabb4bf3f3f4ec5b0e4e5d66ec14075e2cd6d45dd318f13dfb8b4e57116 |
Commit history 0
No commits in the history this site was built from.