notbugAs an Amazon Associate I earn from qualifying purchases.
Want a good read? Try FreeBSD Mastery: Jails (IT Mastery Book 15)
Want a good monitor light? See my photosAll times are UTC		 Ukraine
The recently imposed "must be logged in" restriction is a response to increased bot traffic on the site. This affects search, commits, and vuxml pages.
Search engines are not blocked. Try using "site:www.freshports.org" and your search terms.
Volunteers wanted to help translate FreshPorts
Port details
bcf-score Bcftools plugins for GWAS-VCF summary statistics files
1.20_3 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout 1.20_3Version of this port present on the latest quarterly branch.
There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2023-02-25 14:30:08
Last Update: 2026-10-08 13:42:17
Commit Hash: 2414383
License: MIT
WWW:
https://software.broadinstitute.org/software/score/
Description:
Score is a set of tools in the form of a bcftools plugin, for handling and converting summary statistics files following the GWAS-VCF specification.
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb - no subversion history for this port

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (13 items)
Collapse this list.
  1. /usr/local/share/licenses/bcf-score-1.20_3/catalog.mk
  2. /usr/local/share/licenses/bcf-score-1.20_3/LICENSE
  3. /usr/local/share/licenses/bcf-score-1.20_3/MIT
  4. libexec/bcftools/blup.so
  5. libexec/bcftools/liftover.so
  6. libexec/bcftools/metal.so
  7. libexec/bcftools/munge.so
  8. libexec/bcftools/pgs.so
  9. libexec/bcftools/score.so
  10. share/bcf-score/assoc_plot.R
  11. @owner
  12. @group
  13. @mode
Collapse this list.
USE_RC_SUBR (Service Scripts)
  • no SUBR information found for this port
Dependency lines:
  • bcf-score>0:biology/bcf-score
To install the port:
cd /usr/ports/biology/bcf-score/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/bcf-score
  • pkg install bcf-score
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: bcf-score
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1750428714 SHA256 (score_1.20-20240505.tar.gz) = c2ac510f0a48e3d2e61d1a9e219e030b1268cdcf3bf987217bbd16740d962d41 SIZE (score_1.20-20240505.tar.gz) = 96852

Expand this list (2 items)

Collapse this list.

SHA256 (samtools-bcftools-1.20-1.22_GH0.tar.gz) = 1608e547daf7bd5ab7d52dea57019f57da3fdfb29bc26dece1e8d01a999a9a2d SIZE (samtools-bcftools-1.20-1.22_GH0.tar.gz) = 3751342

Collapse this list.

Packages (timestamps in pop-ups are UTC):
bcf-score
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64leriscv64
FreeBSD:13:latest1.20_31.20_3n/an/an/an/an/an/an/a
FreeBSD:13:quarterly1.20_31.20_3n/an/an/an/an/an/an/a
FreeBSD:14:latest1.20_31.20_3--1.20_31.16-1.16-
FreeBSD:14:quarterly1.20_31.20_3--1.20_31.16_11.16_11.16_1-
FreeBSD:15:latest1.20_31.20_3n/a-n/an/a1.16_11.16_1-
FreeBSD:15:quarterly1.20_31.20_3n/a-n/an/a---
FreeBSD:16:latest1.20_31.20_3n/a-n/an/a---
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. htslib>=1.22 : biology/htslib
  2. gmake>=4.4.1 : devel/gmake
  3. autoconf>=2.73 : devel/autoconf
  4. automake>=1.18.1 : devel/automake
Test dependencies:
  1. bash : shells/bash
  2. perl5>=5.42.r<5.43 : lang/perl5.42
Runtime dependencies:
  1. bash : shells/bash
  2. bcftools>=1.20 : biology/bcftools
Library dependencies:
  1. libhts.so : biology/htslib
  2. libcholmod.so : math/suitesparse-cholmod
There are no ports dependent upon this port
Configuration Options:
No options to configure
Options name:
biology_bcf-score
USES:
autoreconf gmake localbase perl5 python:env shebangfix
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (2 items)
Collapse this list.
  1. https://codeload.github.com/samtools/bcftools/tar.gz/1.22?dummy=/
  2. https://software.broadinstitute.org/software/score/
Collapse this list.

Number of commits found: 7

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
1.20_3
08 Oct 2026 13:42:17
commit hash: 2414383046ebd2d1abafe9b901575b9c219fe33bcommit hash: 2414383046ebd2d1abafe9b901575b9c219fe33bcommit hash: 2414383046ebd2d1abafe9b901575b9c219fe33bcommit hash: 2414383046ebd2d1abafe9b901575b9c219fe33b files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
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.
1.20_3
01 Aug 2025 21:08:37
commit hash: 935de0247eabcf7b0219e6cecf91dbb8085b3a7acommit hash: 935de0247eabcf7b0219e6cecf91dbb8085b3a7acommit hash: 935de0247eabcf7b0219e6cecf91dbb8085b3a7acommit hash: 935de0247eabcf7b0219e6cecf91dbb8085b3a7a files touched by this commit		 Thierry Thomas (thierry) search for other commits by this committer 
*/*: chase the upgrade to SuiteSparse
1.20_2
21 Jun 2025 22:18:08
commit hash: 890b1c25be4d08975680e6a0e3411537f8222e4dcommit hash: 890b1c25be4d08975680e6a0e3411537f8222e4dcommit hash: 890b1c25be4d08975680e6a0e3411537f8222e4dcommit hash: 890b1c25be4d08975680e6a0e3411537f8222e4d files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
biology/bcf-score: Use latest versions of hstlib and bcftools
1.20_1
11 Jan 2025 10:02:35
commit hash: 8ce84fb385c0f00981db559af996106105113480commit hash: 8ce84fb385c0f00981db559af996106105113480commit hash: 8ce84fb385c0f00981db559af996106105113480commit hash: 8ce84fb385c0f00981db559af996106105113480 files touched by this commit		 Thierry Thomas (thierry) search for other commits by this committer 
*/*: bump PORTREVISION after the upgrade to Suitesparse
1.20
09 Oct 2024 22:23:09
commit hash: 384625e2db650bbc95ae66326590e67357126009commit hash: 384625e2db650bbc95ae66326590e67357126009commit hash: 384625e2db650bbc95ae66326590e67357126009commit hash: 384625e2db650bbc95ae66326590e67357126009 files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
biology/bcf-score: Update to 1.20

Numerous bug fixes and enhancements since 1.16

Reported by:    portscout
1.16_1
16 Jul 2023 13:19:06
commit hash: 63e5ba4396f40d97df99b2856113afcb7623d7c9commit hash: 63e5ba4396f40d97df99b2856113afcb7623d7c9commit hash: 63e5ba4396f40d97df99b2856113afcb7623d7c9commit hash: 63e5ba4396f40d97df99b2856113afcb7623d7c9 files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
biology/bcf-score: Unbreak build with clang 16

Patch function pointer assignments that went from warning to error
with the compiler upgrade

Reported by:    pkg-fallout
1.16
25 Feb 2023 14:27:46
commit hash: 68c12d4ad402d885c078499f05c4a3919276398bcommit hash: 68c12d4ad402d885c078499f05c4a3919276398bcommit hash: 68c12d4ad402d885c078499f05c4a3919276398bcommit hash: 68c12d4ad402d885c078499f05c4a3919276398b files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
biology/bcf-score: Bcftools plugins for GWAS-VCF summary statistics

Score is a set of tools in the form of a bcftools plugin, for handling
and converting summary statistics files following the GWAS-VCF
specification.

Number of commits found: 7
Login
User Login
Create account

Servers and bandwidth provided by
New York Internet, iXsystems, and RootBSD

This site
What is FreshPorts?
About the authors
Issues
FAQ
How big is it?
Security Policy
Privacy
Blog
Contact

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
openssh-portableOct 08
xorg-serverOct 08
xwaylandOct 08
rabbitmq-cOct 06
rabbitmq-cOct 06
rabbitmq-cOct 06
vaultwardenOct 06
libresslOct 05
libressl-develOct 05
apache24*Oct 04
bind920Oct 04
expat2Oct 04
keycloakOct 02
artiOct 01
conduitOct 01

26 vulnerabilities affecting 348 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities

Last processed:
2026-10-08 18:15:40 UTC


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds

Statistics
Graphs
NEW Graphs (Javascript)

Calculated hourly:
Port count 35198
Broken 75
Deprecated 327
Ignore 191
Forbidden 0
Restricted 1
No CDROM 1
Vulnerable 45
Expired 10
Set to expire 252
Interactive 0
new 24 hours 1
new 48 hours3
new 7 days32
new fortnight87
new month218
Servers and bandwidth provided by
New York Internet, iXsystems, and RootBSD 		Valid HTML, CSS, and RSS. Copyright © 2000-2026 Dan Langille. All rights reserved.