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Port details
seqtk Tool for processing sequences in FASTA/FASTQ format
1.4 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 1.4Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2018-04-03 20:57:19
Last Update: 2023-05-23 22:42:13
Commit Hash: de28a1d
License: GPLv2
WWW:
https://github.com/lh3/seqtk
Description:
Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format. It seamlessly parses both FASTA and FASTQ files which can also be optionally compressed by gzip. It performs basic file conversions and edits much like standard Unix tools do with text files.
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (4 items)
Collapse this list.
  1. bin/seqtk
  2. /usr/local/share/licenses/seqtk-1.4/catalog.mk
  3. /usr/local/share/licenses/seqtk-1.4/LICENSE
  4. /usr/local/share/licenses/seqtk-1.4/GPLv2
Collapse this list.
Dependency lines:
  • seqtk>0:biology/seqtk
To install the port:
cd /usr/ports/biology/seqtk/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/seqtk
  • pkg install seqtk
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: seqtk
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1684848703 SHA256 (lh3-seqtk-v1.4_GH0.tar.gz) = d124604ec24f29ed14ce127426ab90e0f3a2c0280c80d1a3ff8b1c09feede19c SIZE (lh3-seqtk-v1.4_GH0.tar.gz) = 23748

Packages (timestamps in pop-ups are UTC):
seqtk
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest1.41.41.2.81.41.4-1.2.8-
FreeBSD:13:quarterly1.41.41.41.41.41.41.41.4
FreeBSD:14:latest1.41.41.31.41.41.4-1.4
FreeBSD:14:quarterly1.41.4-1.41.41.41.41.4
FreeBSD:15:latest1.41.4n/a1.4n/a1.41.41.4
FreeBSD:15:quarterly--n/a-n/a---
This port has no dependencies.
This port is required by:
for Run
  1. biology/biostar-tools
  2. biology/ddocent

Configuration Options:
No options to configure
Options name:
biology_seqtk
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/lh3/seqtk/tar.gz/v1.4?dummy=/
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
1.4
23 May 2023 22:42:13
commit hash: de28a1d92f7bf637142a94fc45686baf1178c6d1commit hash: de28a1d92f7bf637142a94fc45686baf1178c6d1commit hash: de28a1d92f7bf637142a94fc45686baf1178c6d1commit hash: de28a1d92f7bf637142a94fc45686baf1178c6d1 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/seqtk: Update to 1.4

Several new subcommands
Faster FASTX parsing

Reported by:    portscout
07 Sep 2022 21:58:51
commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
1.3
07 Sep 2022 21:10:59
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
1.3
18 Dec 2021 19:37:06
commit hash: 02105a9bc95c5771fac5452e1cf8176a1b591c88commit hash: 02105a9bc95c5771fac5452e1cf8176a1b591c88commit hash: 02105a9bc95c5771fac5452e1cf8176a1b591c88commit hash: 02105a9bc95c5771fac5452e1cf8176a1b591c88 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/seqtk: Update to 1.3

A few minor fixes and enhancements

Changes: https://github.com/lh3/seqtk/tags
1.2.8
07 Apr 2021 08:09:01
commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash: cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash: cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
1.2.8
06 Apr 2021 14:31:07
commit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
1.2.8
03 Apr 2018 20:57:05
Revision:466379Original commit files touched by this commit
jwb search for other commits by this committer
biology/seqtk: Tool for processing sequences in FASTA/FASTQ format

Approved by:    jrm
Differential Revision:  https://reviews.freebsd.org/D14954

Number of commits found: 7