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.
Port details
preseq Predict yield of distinct reads from a genomic library
3.2.0 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 3.2.0Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2024-11-22 20:39:08
Last Update: 2026-05-07 21:47:29
Commit Hash: 2a7c056
License: GPLv3
WWW:
https://github.com/smithlabcode/preseq
Description:
The preseq package is aimed at predicting the yield of distinct reads from a genomic library from an initial sequencing experiment. The estimates can then be used to examine the utility of further sequencing, optimize the sequencing depth, or to screen multiple libraries to avoid low complexity samples.
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 (23 items)
Collapse this list.
  1. /usr/local/share/licenses/preseq-3.2.0/catalog.mk
  2. /usr/local/share/licenses/preseq-3.2.0/LICENSE
  3. /usr/local/share/licenses/preseq-3.2.0/GPLv3
  4. bin/preseq
  5. bin/to-mr
  6. include/GenomicRegion.hpp
  7. include/MappedRead.hpp
  8. include/OptionParser.hpp
  9. include/QualityScore.hpp
  10. include/bisulfite_utils.hpp
  11. include/chromosome_utils.hpp
  12. include/cigar_utils.hpp
  13. include/dna_four_bit.hpp
  14. include/htslib_wrapper_deprecated.hpp
  15. include/sam_record.hpp
  16. include/sim_utils.hpp
  17. include/smithlab_os.hpp
  18. include/smithlab_utils.hpp
  19. include/zlib_wrapper.hpp
  20. lib/libsmithlab_cpp.a
  21. @owner
  22. @group
  23. @mode
Collapse this list.
USE_RC_SUBR (Service Scripts)
  • no SUBR information found for this port
Dependency lines:
  • preseq>0:biology/preseq
To install the port:
cd /usr/ports/biology/preseq/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/preseq
  • pkg install preseq
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: preseq
Flavors: there is no flavor information for this port.
NOT_FOR_ARCHS: armv6 armv7 i386 powerpc powerpcspe
distinfo:
TIMESTAMP = 1732301093 SHA256 (preseq-3.2.0.tar.gz) = 95b81c9054e0d651de398585c7e96b807ad98f0bdc541b3e46665febbe2134d9 SIZE (preseq-3.2.0.tar.gz) = 6488708
Packages (timestamps in pop-ups are UTC):
preseq
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest3.2.03.2.0---n/an/an/a
FreeBSD:13:quarterly3.2.03.2.0---n/an/an/a
FreeBSD:14:latest3.2.03.2.0------
FreeBSD:14:quarterly3.2.03.2.0------
FreeBSD:15:latest3.2.03.2.0n/a-n/an/a--
FreeBSD:15:quarterly3.2.03.2.0n/a-n/an/a--
FreeBSD:16:latest3.2.03.2.0n/a-n/an/a--
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Library dependencies:
  1. libhts.so : biology/htslib
There are no ports dependent upon this port
Configuration Options:
No options to configure
Options name:
biology_preseq
USES:
localbase
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://github.com/smithlabcode/preseq/releases/download/v3.2.0/
Collapse this list.

Number of commits found: 3

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
3.2.0
07 May 2026 21:47:29
commit hash: 2a7c0561200c6cf9d0c0252cd4a7ab446eca8e4acommit hash: 2a7c0561200c6cf9d0c0252cd4a7ab446eca8e4acommit hash: 2a7c0561200c6cf9d0c0252cd4a7ab446eca8e4acommit hash: 2a7c0561200c6cf9d0c0252cd4a7ab446eca8e4a files touched by this commit		 Rene Ladan (rene) search for other commits by this committer 
all: drop support for FreeBSD 13, mips and risc64sf

Reviewed by:            many (*)
Differential Revision:  https://reviews.freebsd.org/D55624
Differential Revision:  https://reviews.freebsd.org/D55642 (merged in from bofh)

many (*)
  acm arrowd brooks cmt dch decke dinoex eduardo fluffy fuz gahr garga
  jbeich joerg jrm kai kenrap martymac matthew mfechner michaelo mizhka
  nobutaka pkubaj se tagattie thj

  Anton Saietskii
  GenericRikka
  Gert Doering
  Jan Bramkamp
  Oleh Hushchenkov
  Oleksandr Kryvulia
  Ralf van der Enden
  Yamagi

  desktop kde python tcltk office
3.2.0
24 Nov 2024 13:50:11
commit hash: 1c58b378342de7c0a1c41fc1a13bca25f658d76fcommit hash: 1c58b378342de7c0a1c41fc1a13bca25f658d76fcommit hash: 1c58b378342de7c0a1c41fc1a13bca25f658d76fcommit hash: 1c58b378342de7c0a1c41fc1a13bca25f658d76f files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
preseq: Not for 32-bit platforms

Build fails on i386 and bioinformatics generally requires 64 bits
3.2.0
22 Nov 2024 20:35:51
commit hash: af7a74db0001a2996b12a6e45c3ac235b92647b7commit hash: af7a74db0001a2996b12a6e45c3ac235b92647b7commit hash: af7a74db0001a2996b12a6e45c3ac235b92647b7commit hash: af7a74db0001a2996b12a6e45c3ac235b92647b7 files touched by this commit		 Jason W. Bacon (jwb) search for other commits by this committer 
biology/preseq: Predict yield of distinct reads from a genomic library

The preseq package is aimed at predicting the yield of distinct reads
from a genomic library from an initial sequencing experiment. The
estimates can then be used to examine the utility of further
sequencing, optimize the sequencing depth, or to screen multiple
libraries to avoid low complexity samples.

Number of commits found: 3
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
podmanJun 22
python310*Jun 19
python310*Jun 19
python310*Jun 19
python310*Jun 19
python311*Jun 19
python311*Jun 19
python311*Jun 19
python311*Jun 19
python312*Jun 19
python312*Jun 19
python312*Jun 19
python312*Jun 19
python313*Jun 19
python313*Jun 19

34 vulnerabilities affecting 359 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities

Last processed:
2026-06-23 10:46:20 UTC


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds

Statistics
Graphs
NEW Graphs (Javascript)

Calculated hourly:
Port count 34591
Broken 78
Deprecated 326
Ignore 194
Forbidden 0
Restricted 1
No CDROM 1
Vulnerable 41
Expired 14
Set to expire 253
Interactive 0
new 24 hours 0
new 48 hours1
new 7 days36
new fortnight55
new month140
Servers and bandwidth provided by
New York Internet, iXsystems, and RootBSD 		Valid HTML, CSS, and RSS. Copyright © 2000-2026 Dan Langille. All rights reserved.