CVE and update status of the FreeBSD ports tree4,826 unaddressed CVEs in 618 portsAll times are CET

Port details

biology/bifrost1.3.9

Parallel construction, indexing and querying of de Bruijn graphs

0
unaddressed
0
VuXML only, still affected
0
fixed
Maintainer
ports@FreeBSD.org
Packages
bifrost 1.3.9
Upstream
up to date
CPE
none, CVEs only via VuXML
WWW
https://github.com/pmelsted/bifrost
Links
cgit · VuXML

Unaddressed (0) · The CVE record lists this version as affected, no VuXML entry names the CVE

None. There is no CVE without a VuXML entry for this version.

VuXML only (0) · listed, port not fixed yet

None. pkg audit reports nothing for this version.

Fixed (0)

No VuXML entries for this package.

Commits (10)

Jason W. Bacon (jwb) · 1.3.9
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.
2414383046
Jason W. Bacon (jwb) · 1.3.9
biology/bifrost: Update to 1.3.9

A few bug fixes since 1.3.5
Upstreamed one patch for recent clang
Changes: https://github.com/pmelsted/bifrost/releases

Reported by:    portscout
3fe1059408
Jason W. Bacon (jwb) · 1.3.5_1
biology/bifrost: Remove USE_GCC, fix build with clang19

Fix apparent typo in seldom-used code (hayzam@alchemilla.io)

Reported by:    gerald
Tested by:      jwb
bba37490f1
Jason W. Bacon (jwb) · 1.3.5
biology/bifrost: Unbreak build on 15-CURRENT

Unable to identify the cause, use GCC as a workaround for now
No change on other FreeBSD versions
40478d7acd
Jason W. Bacon (jwb) · 1.3.5
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
719334cd85
Jason W. Bacon (jwb) · 1.3.1
biology/bifrost: Update to 1.3.1

Minor bugfix release
Changes: https://github.com/pmelsted/bifrost/releases

Reported by:    portscout
d1bf49e314
Jason W. Bacon (jwb) · 1.3.0
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
2650106a61
Jason W. Bacon (jwb) · 1.2.1_1
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
f38473fec0
Jason W. Bacon (jwb) · 1.2.1
biology/bifrost: Portability fixes

Tag as only for 64-bit platforms
Fix build on aarch64 (patch out -march=native)

Reported by:    pkg-fallout
7d4be2d6fd
Jason W. Bacon (jwb) · 1.2.1
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.
9644117950