Port details |
- bifrost Parallel construction, indexing and querying of de Bruijn graphs
- 1.3.5 biology
=2 1.3.5Version of this port present on the latest quarterly branch. - Maintainer: jwb@FreeBSD.org
 - Port Added: 2023-07-07 13:39:14
- Last Update: 2024-03-18 14:29:43
- Commit Hash: 719334c
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- License: BSD2CLAUSE
- WWW:
- https://github.com/pmelsted/bifrost
- Description:
- Bifrost is a tool and API for parallel construction, indexing and
querying of colored and compacted de Bruijn graphs from FASTA/FASTQ
DNA/RNA sequence files.
¦ ¦ ¦ ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- bifrost>0:biology/bifrost
- To install the port:
- cd /usr/ports/biology/bifrost/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/bifrost
- pkg install bifrost
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: bifrost
- Flavors: there is no flavor information for this port.
- ONLY_FOR_ARCHS: aarch64 amd64 powerpc64 powerpc64le riscv64
- distinfo:
- TIMESTAMP = 1710590640
SHA256 (pmelsted-bifrost-v1.3.5_GH0.tar.gz) = e1b2491328b0cc1a32e433a8a9780f05547fa4b8d674b58abdda9ac8809f5341
SIZE (pmelsted-bifrost-v1.3.5_GH0.tar.gz) = 356701
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- cmake : devel/cmake-core
- ninja : devel/ninja
- There are no ports dependent upon this port
Configuration Options:
- No options to configure
- Options name:
- biology_bifrost
- USES:
- cmake
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
Commit | Credits | Log message |
1.3.5 18 Mar 2024 14:29:43
    |
Jason W. Bacon (jwb)  |
biology/bifrost: Update to 1.3.5
A few new features and bug fixes
Some important changes in CLI behavior
Changes: https://github.com/pmelsted/bifrost/releases
Reported by: portscout |
1.3.1 21 Nov 2023 12:58:39
    |
Jason W. Bacon (jwb)  |
biology/bifrost: Update to 1.3.1
Minor bugfix release
Changes: https://github.com/pmelsted/bifrost/releases
Reported by: portscout |
1.3.0 11 Oct 2023 12:31:57
    |
Jason W. Bacon (jwb)  |
biology/bifrost: Update to 1.3.0
Performance and memory efficiency improvements
A few new features
Note: New index format incompatible with previous versions
Changes: https://github.com/pmelsted/bifrost/releases
Reported by: portscout |
1.2.1_1 12 Aug 2023 14:38:47
    |
Jason W. Bacon (jwb)  |
biology/bifrost: Control -march via CPUTYPE make variable
Also disable hard-coded -O3 in cmake to respect user env
PR: 272651
Reported by: yuri
Reviewed by: nimaje+fbz@bureaucracy.de, dizzy |
1.2.1 16 Jul 2023 13:40:30
    |
Jason W. Bacon (jwb)  |
biology/bifrost: Portability fixes
Tag as only for 64-bit platforms
Fix build on aarch64 (patch out -march=native)
Reported by: pkg-fallout |
1.2.1 07 Jul 2023 13:38:22
    |
Jason W. Bacon (jwb)  |
biology/bifrost: Parallel tool for de Bruijn graphs
Bifrost is a tool and API for parallel construction, indexing and
querying of colored and compacted de Bruijn graphs from FASTA/FASTQ
DNA/RNA sequence files. |