BSD Portsbiology/bolt-lmm 2.5_1 FreeBSD
Mixed model association testing and variance component analysis
- System
- FreeBSD
- Repository
- FreeBSD ports
- Maintainer
- [email protected]
- Last update
- Commit
2414383046- License
- GPLv3
- Categories
- biology
- Package size
- 208234.7 KiB, 215033.0 KiB installed
Description
The BOLT-LMM software package currently consists of two main algorithms, the BOLT-LMM algorithm for mixed model association testing, and the BOLT-REML algorithm for variance components analysis (i.e., partitioning of SNP-heritability and estimation of genetic correlations).
In the other systems
The newest version among them is 2.5, as upstream numbers it.
| System | Port | Version | Vulnerabilities | Status | Maintainer | Last update |
|---|---|---|---|---|---|---|
| FreeBSD | biology/bolt-lmm | 2.5_1 newest | none known | - | [email protected] | 2026-10-08 |
| NetBSD | wip/bolt-lmm by name | 2.3.2nb1 behind since 2026-09-04 | none known | - | [email protected] | - |
| DragonFly | biology/bolt-lmm | 2.3.6_15 behind since 2026-09-04 | none known | - | [email protected] | - |
| GhostBSD | biology/bolt-lmm | 2.5 newest | no data | - | [email protected] | - |
Version history 1
Upstream's version as each commit to the port's Makefile set it, or as this site first saw it in the system's packages; the tree's own revisions are not versions here.
Install
Binary package:
pkg install bolt-lmmFrom the ports tree:
cd /usr/ports/biology/bolt-lmm/ && make install cleanTo depend on this port in another port's Makefile:
RUN_DEPENDS= bolt-lmm>0:biology/bolt-lmmPackages
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 | 2.5_1 | 2.5_1 | - | - | 2.5_1 |
| FreeBSD:14:quarterly | 2.5_1 | 2.5_1 | n/a | - | 2.5_1 |
| FreeBSD:15:latest | 2.5_1 | 2.5_1 | n/a | - | - |
| FreeBSD:15:quarterly | 2.5_1 | 2.5_1 | n/a | n/a | n/a |
| FreeBSD:16:latest | 2.5_1 | 2.5_1 | n/a | n/a | n/a |
| FreeBSD:16:quarterly | n/a | n/a | n/a | n/a | n/a |
Dependency graph
Ports that need it on the left, what it needs to run on the right; at most 8 of each. "Dependencies" below lists them all.
Dependencies
As this port's Makefile names them.
Library 4
libnlopt.so: math/nloptlibopenblas.so: math/openblaslibboost_program_options.so: devel/boost-libslibzstd.so: archivers/zstd
The full lists below include those, and their dependencies in turn.
Build dependencies 14
Run dependencies 12
No port depends on this one.
Configuration
Options name: biology_bolt-lmm
| Option | Default | Description |
|---|---|---|
| EXAMPLES | off | Build and/or install examples |
- USES
- gmake
- Service scripts
- none
- Conflicts with
- rubygem-bolt
Message after installing
===> NOTICE: The bolt-lmm port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing
Files
pkg-plist 4
- bin/bolt
- share/bolt-lmm/tables/LDSCORE.1000G_EUR.GRCh38.tab.gz
- share/bolt-lmm/tables/genetic_map_hg19_withX.txt.gz
- share/bolt-lmm/tables/genetic_map_hg38_withX.txt.gz
distinfo 1
| File | Size | SHA256 |
|---|---|---|
| BOLT-LMM_v2.5.tar.gz | 2.21424899e+08 | a5fdc49f79f42aa007282d9080e5b97c6ef2aab25ace2af306f432c44eedebca |
Master sites 1
- https://data.broadinstitute.org/alkesgroup/BOLT-LMM/downloads/