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Port details
seqkit Cross-platform and ultrafast toolkit for FASTA/Q file manipulation
2.8.0_1 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 2.6.1_1Version of this port present on the latest quarterly branch.
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2021-04-16 21:06:12
Last Update: 2024-03-24 14:29:00
Commit Hash: a5a000d
License: MIT
WWW:
https://bioinf.shenwei.me/seqkit/
Description:
FASTA and FASTQ are basic and ubiquitous formats for storing nucleotide and protein sequences. Common manipulations of FASTA/Q file include converting, searching, filtering, deduplication, splitting, shuffling, and sampling. Existing tools only implement some of these manipulations, and not particularly efficiently, and some are only available for certain operating systems. Furthermore, the complicated installation process of required packages and running environments can render these programs less user friendly. SeqKit is a cross-platform ultrafast comprehensive toolkit for FASTA/Q processing. SeqKit provides executable binary files for all major operating systems, including Windows, Linux, and Mac OS X, and can be directly used without any dependencies or pre-configurations. SeqKit demonstrates competitive performance in execution time and memory usage compared to similar tools. The efficiency and usability of SeqKit enable researchers to rapidly accomplish common FASTA/Q file manipulations.
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 (4 items)
Collapse this list.
  1. bin/seqkit
  2. /usr/local/share/licenses/seqkit-2.8.0_1/catalog.mk
  3. /usr/local/share/licenses/seqkit-2.8.0_1/LICENSE
  4. /usr/local/share/licenses/seqkit-2.8.0_1/MIT
Collapse this list.
Dependency lines:
  • seqkit>0:biology/seqkit
To install the port:
cd /usr/ports/biology/seqkit/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/seqkit
  • pkg install seqkit
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: seqkit
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1710220176 SHA256 (go/biology_seqkit/seqkit-v2.8.0/v2.8.0.mod) = 5a4eefdd7e32176c2f257c61a92713f1ed4198aa941ef7a9c2af5d3299b13832 SIZE (go/biology_seqkit/seqkit-v2.8.0/v2.8.0.mod) = 2514

Expand this list (4 items)

Collapse this list.

SHA256 (go/biology_seqkit/seqkit-v2.8.0/v2.8.0.zip) = 4d9098243915a47453ad0b38f251629ba2cd4a20d9948458190b0083f43dee12 SIZE (go/biology_seqkit/seqkit-v2.8.0/v2.8.0.zip) = 33929335 SHA256 (go/biology_seqkit/seqkit-v2.8.0/golang-sys-v0.6.0_GH0.tar.gz) = b4f6d17c7a128f76169964b437cb66b3f2dbf9a33361928ec19dfecf7b03fc54 SIZE (go/biology_seqkit/seqkit-v2.8.0/golang-sys-v0.6.0_GH0.tar.gz) = 1434234

Collapse this list.


Packages (timestamps in pop-ups are UTC):
seqkit
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest2.8.02.8.0-2.8.02.8.0---
FreeBSD:13:quarterly2.6.1_12.6.1_1-2.6.1_12.6.1_1---
FreeBSD:14:latest2.8.02.8.0-2.6.1_22.8.0---
FreeBSD:14:quarterly2.6.1_12.6.1_1-2.6.1_12.6.1_1---
FreeBSD:15:latest2.8.02.8.0n/a2.6.1_2n/a---
FreeBSD:15:quarterly--n/a-n/a---
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. go121 : lang/go121
Fetch dependencies:
  1. go121 : lang/go121
  2. ca_root_nss>0 : security/ca_root_nss
This port is required by:
for Run
  1. biology/biostar-tools

Configuration Options:
No options to configure
Options name:
biology_seqkit
USES:
go:modules zip
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://proxy.golang.org/github.com/shenwei356/seqkit/v2/@v/
Collapse this list.

Number of commits found: 36

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
2.8.0_1
24 Mar 2024 14:29:00
commit hash: a5a000df3b3697665460dbfbafe7120e306d8913commit hash: a5a000df3b3697665460dbfbafe7120e306d8913commit hash: a5a000df3b3697665460dbfbafe7120e306d8913commit hash: a5a000df3b3697665460dbfbafe7120e306d8913 files touched by this commit
Muhammad Moinur Rahman (bofh) search for other commits by this committer
lang/go: Change DEFAULT to 1.21

PR:		277776
Approved by:	portmgr (exp-run)
2.8.0
12 Mar 2024 19:42:11
commit hash: 509705557fdeb10066593ee0f4569f009b99d337commit hash: 509705557fdeb10066593ee0f4569f009b99d337commit hash: 509705557fdeb10066593ee0f4569f009b99d337commit hash: 509705557fdeb10066593ee0f4569f009b99d337 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: update 2.7.0 → 2.8.0

Reported by:	portscout
2.7.0
08 Mar 2024 22:34:42
commit hash: 5b32e83eaae3e5187846f2d3d14a3a72e9309adacommit hash: 5b32e83eaae3e5187846f2d3d14a3a72e9309adacommit hash: 5b32e83eaae3e5187846f2d3d14a3a72e9309adacommit hash: 5b32e83eaae3e5187846f2d3d14a3a72e9309ada files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: update 2.6.1 → 2.7.0

Reported by:	portscout
2.6.1_2
11 Feb 2024 10:39:17
commit hash: 7e5aa2085f48d71be003c8ff0377bde837467291commit hash: 7e5aa2085f48d71be003c8ff0377bde837467291commit hash: 7e5aa2085f48d71be003c8ff0377bde837467291commit hash: 7e5aa2085f48d71be003c8ff0377bde837467291 files touched by this commit
Ashish SHUKLA (ashish) search for other commits by this committer
all: Bump PORTREVISION after lang/go* update

PR:		276530
2.6.1_1
07 Dec 2023 02:22:10
commit hash: 0505b712df3ae2b4bcaba00aecc7c1e9100d8609commit hash: 0505b712df3ae2b4bcaba00aecc7c1e9100d8609commit hash: 0505b712df3ae2b4bcaba00aecc7c1e9100d8609commit hash: 0505b712df3ae2b4bcaba00aecc7c1e9100d8609 files touched by this commit
Ashish SHUKLA (ashish) search for other commits by this committer
all: Bump PORTREVISION after lang/go* update

PR:		274405
2.6.1
19 Nov 2023 09:36:26
commit hash: 82490167bba93a494e08864f759944c6197a45a3commit hash: 82490167bba93a494e08864f759944c6197a45a3commit hash: 82490167bba93a494e08864f759944c6197a45a3commit hash: 82490167bba93a494e08864f759944c6197a45a3 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: update 2.6.0 → 2.6.1

Reported by:	portscout
2.6.0
13 Nov 2023 23:34:21
commit hash: 05fe532125eeac2f96fa9440dde3d7f75614b3e1commit hash: 05fe532125eeac2f96fa9440dde3d7f75614b3e1commit hash: 05fe532125eeac2f96fa9440dde3d7f75614b3e1commit hash: 05fe532125eeac2f96fa9440dde3d7f75614b3e1 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: update 2.5.1 → 2.6.0

Reported by:	portscout
2.5.1_1
08 Sep 2023 14:34:56
commit hash: 8e4bc57934f0611f59a2bfca1ddbab781572ead3commit hash: 8e4bc57934f0611f59a2bfca1ddbab781572ead3commit hash: 8e4bc57934f0611f59a2bfca1ddbab781572ead3commit hash: 8e4bc57934f0611f59a2bfca1ddbab781572ead3 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go* update
2.5.1
09 Aug 2023 05:52:28
commit hash: 9f724a0f6998929c343f3a9dd1242ef29b21cff5commit hash: 9f724a0f6998929c343f3a9dd1242ef29b21cff5commit hash: 9f724a0f6998929c343f3a9dd1242ef29b21cff5commit hash: 9f724a0f6998929c343f3a9dd1242ef29b21cff5 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.5.0 → 2.5.1

Reported by:	portscout
2.5.0_1
04 Aug 2023 14:24:50
commit hash: 09b993031a3b38ba8c33639ca40c1e3d69de67fccommit hash: 09b993031a3b38ba8c33639ca40c1e3d69de67fccommit hash: 09b993031a3b38ba8c33639ca40c1e3d69de67fccommit hash: 09b993031a3b38ba8c33639ca40c1e3d69de67fc files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{119,120} update
2.5.0
17 Jul 2023 04:37:53
commit hash: bd57718279ee41f3c3896f80a3ee10673681e959commit hash: bd57718279ee41f3c3896f80a3ee10673681e959commit hash: bd57718279ee41f3c3896f80a3ee10673681e959commit hash: bd57718279ee41f3c3896f80a3ee10673681e959 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.4.0 → 2.5.0

Reported by:	portscout
2.4.0_2
08 Apr 2023 15:13:25
commit hash: ff40d94c1d2c808f3b54fad0e0a0a18dd9c62912commit hash: ff40d94c1d2c808f3b54fad0e0a0a18dd9c62912commit hash: ff40d94c1d2c808f3b54fad0e0a0a18dd9c62912commit hash: ff40d94c1d2c808f3b54fad0e0a0a18dd9c62912 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{119,120} update
2.4.0_1
21 Mar 2023 12:53:48
commit hash: bd71c9d3c67e00fa60e2c853855db76ba43e4500commit hash: bd71c9d3c67e00fa60e2c853855db76ba43e4500commit hash: bd71c9d3c67e00fa60e2c853855db76ba43e4500commit hash: bd71c9d3c67e00fa60e2c853855db76ba43e4500 files touched by this commit
Robert Clausecker (fuz) search for other commits by this committer
biology/seqkit: fix build on riscv64

Bump golang.org/x/sys dependency to a version new enough
to support riscv64-freebsd.

Sponsored by:	Berliner Linux User Group e.V.
Approved by:	yuri (maintainer)
Differential Revision: https://reviews.freebsd.org/D39154
2.4.0
17 Mar 2023 22:54:48
commit hash: bf997b76d8ceecd6c5dbcb0113ce441f92dce3d3commit hash: bf997b76d8ceecd6c5dbcb0113ce441f92dce3d3commit hash: bf997b76d8ceecd6c5dbcb0113ce441f92dce3d3commit hash: bf997b76d8ceecd6c5dbcb0113ce441f92dce3d3 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.3.1 → 2.4.0

Reported by:	portscout
2.3.1_6
09 Mar 2023 19:18:07
commit hash: 09079730e9ca1d59129935a6046cbb7ee5e4a93dcommit hash: 09079730e9ca1d59129935a6046cbb7ee5e4a93dcommit hash: 09079730e9ca1d59129935a6046cbb7ee5e4a93dcommit hash: 09079730e9ca1d59129935a6046cbb7ee5e4a93d files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after Go ports update
2.3.1_5
15 Feb 2023 19:06:01
commit hash: 56b5ec772f679a600dabe41622c1350594628286commit hash: 56b5ec772f679a600dabe41622c1350594628286commit hash: 56b5ec772f679a600dabe41622c1350594628286commit hash: 56b5ec772f679a600dabe41622c1350594628286 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{119,120} update
2.3.1_4
09 Feb 2023 21:55:23
commit hash: 2297efc51b0f75d25389b742048fb7e9b2d96f0dcommit hash: 2297efc51b0f75d25389b742048fb7e9b2d96f0dcommit hash: 2297efc51b0f75d25389b742048fb7e9b2d96f0dcommit hash: 2297efc51b0f75d25389b742048fb7e9b2d96f0d files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after GO_DEFAULT update.
2.3.1_3
14 Jan 2023 11:31:17
commit hash: 3b383d833aadb5e3e89d8ee3db1fef37ac239af6commit hash: 3b383d833aadb5e3e89d8ee3db1fef37ac239af6commit hash: 3b383d833aadb5e3e89d8ee3db1fef37ac239af6commit hash: 3b383d833aadb5e3e89d8ee3db1fef37ac239af6 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTVERSION after lang/go{118,119} update
2.3.1_2
11 Dec 2022 11:17:27
commit hash: d9ad1002d517a618a299e45ae70075f2cfc66d2acommit hash: d9ad1002d517a618a299e45ae70075f2cfc66d2acommit hash: d9ad1002d517a618a299e45ae70075f2cfc66d2acommit hash: d9ad1002d517a618a299e45ae70075f2cfc66d2a files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{118,119} update
2.3.1_1
06 Oct 2022 19:24:26
commit hash: bde51869ee0206eeaa2849d8ef28b14da59727a3commit hash: bde51869ee0206eeaa2849d8ef28b14da59727a3commit hash: bde51869ee0206eeaa2849d8ef28b14da59727a3commit hash: bde51869ee0206eeaa2849d8ef28b14da59727a3 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{118,119} update
2.3.1
25 Sep 2022 02:45:15
commit hash: 420a6670b58040d47d93fd8d92a0904730f47b94commit hash: 420a6670b58040d47d93fd8d92a0904730f47b94commit hash: 420a6670b58040d47d93fd8d92a0904730f47b94commit hash: 420a6670b58040d47d93fd8d92a0904730f47b94 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.3.0 -> 2.3.1

Reported by:	portscout
2.3.0_1
08 Sep 2022 16:33:18
commit hash: f05c98fffb232735c05ba30d43fb279085b813d7commit hash: f05c98fffb232735c05ba30d43fb279085b813d7commit hash: f05c98fffb232735c05ba30d43fb279085b813d7commit hash: f05c98fffb232735c05ba30d43fb279085b813d7 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{118,119} update
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)
2.3.0
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)
2.3.0
04 Sep 2022 22:15:19
commit hash: cf9072d641a75924e7e579efb7823ebc64a22958commit hash: cf9072d641a75924e7e579efb7823ebc64a22958commit hash: cf9072d641a75924e7e579efb7823ebc64a22958commit hash: cf9072d641a75924e7e579efb7823ebc64a22958 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.2.0 -> 2.3.0

Reported by:	portscout
2.2.0_3
03 Aug 2022 21:35:13
commit hash: 4476f89764d3ee73d216c2d56df149e8d4c62c24commit hash: 4476f89764d3ee73d216c2d56df149e8d4c62c24commit hash: 4476f89764d3ee73d216c2d56df149e8d4c62c24commit hash: 4476f89764d3ee73d216c2d56df149e8d4c62c24 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after Go update

Bump Go ports PORTREVISION after GO_DEFAULT and lang/go118 update.
2.2.0_2
14 Jul 2022 12:46:05
commit hash: 153cb65ac8a05356245dd09d1ff48c2a6afafc5acommit hash: 153cb65ac8a05356245dd09d1ff48c2a6afafc5acommit hash: 153cb65ac8a05356245dd09d1ff48c2a6afafc5acommit hash: 153cb65ac8a05356245dd09d1ff48c2a6afafc5a files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
all: Bump PORTREVISION after lang/go{117,118} update
2.2.0_1
07 Jun 2022 21:56:10
commit hash: 309cdeccd802bb370a42e80cc4468da17c8dab35commit hash: 309cdeccd802bb370a42e80cc4468da17c8dab35commit hash: 309cdeccd802bb370a42e80cc4468da17c8dab35commit hash: 309cdeccd802bb370a42e80cc4468da17c8dab35 files touched by this commit
Dmitri Goutnik (dmgk) search for other commits by this committer
*/*: Bump port revisons after lang/go{117,118} update
2.2.0
20 Apr 2022 03:44:55
commit hash: 44210d2f5034456ccd534ea7e149f0589da14e9ecommit hash: 44210d2f5034456ccd534ea7e149f0589da14e9ecommit hash: 44210d2f5034456ccd534ea7e149f0589da14e9ecommit hash: 44210d2f5034456ccd534ea7e149f0589da14e9e files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.1.0 -> 2.2.0

Reported by:	portscout
2.1.0_1
30 Mar 2022 07:01:44
commit hash: d690b5102f75bf70e3cfb280a84c9f3eaf4ec653commit hash: d690b5102f75bf70e3cfb280a84c9f3eaf4ec653commit hash: d690b5102f75bf70e3cfb280a84c9f3eaf4ec653commit hash: d690b5102f75bf70e3cfb280a84c9f3eaf4ec653 files touched by this commit
Guangyuan Yang (ygy) search for other commits by this committer
*/*: Bump PORTREVISION after lang/go 1.18 update
2.1.0
16 Nov 2021 18:57:47
commit hash: 4a5488568de1b54ee57989848d8bdb2e503173d3commit hash: 4a5488568de1b54ee57989848d8bdb2e503173d3commit hash: 4a5488568de1b54ee57989848d8bdb2e503173d3commit hash: 4a5488568de1b54ee57989848d8bdb2e503173d3 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 2.0.1 -> 2.1.0

Reported by:	portscout
2.0.1
18 Sep 2021 17:48:26
commit hash: cd48d9beaff13d9364e9e55f4d04e1755931ab42commit hash: cd48d9beaff13d9364e9e55f4d04e1755931ab42commit hash: cd48d9beaff13d9364e9e55f4d04e1755931ab42commit hash: cd48d9beaff13d9364e9e55f4d04e1755931ab42 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 0.16.1 -> 2.0.1
0.16.1
14 Aug 2021 18:53:27
commit hash: 6223eec380d91f3a51d85d88223bb0e2a770dd5ecommit hash: 6223eec380d91f3a51d85d88223bb0e2a770dd5ecommit hash: 6223eec380d91f3a51d85d88223bb0e2a770dd5ecommit hash: 6223eec380d91f3a51d85d88223bb0e2a770dd5e files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Add 'test' target
0.16.1
20 May 2021 06:02:26
commit hash: 635f49c9fda4ba34ba5283344cb0374d10bf7eb9commit hash: 635f49c9fda4ba34ba5283344cb0374d10bf7eb9commit hash: 635f49c9fda4ba34ba5283344cb0374d10bf7eb9commit hash: 635f49c9fda4ba34ba5283344cb0374d10bf7eb9 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Update 0.16.0 -> 0.16.1

Reported by:	portscout
0.16.0
17 Apr 2021 04:00:56
commit hash: 0944666313f233bc7f4e6d4d3d626caacef34e90commit hash: 0944666313f233bc7f4e6d4d3d626caacef34e90commit hash: 0944666313f233bc7f4e6d4d3d626caacef34e90commit hash: 0944666313f233bc7f4e6d4d3d626caacef34e90 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
biology/seqkit: Change WWW to the project URL (from GitHub URL)
0.16.0
16 Apr 2021 21:04:16
commit hash: 2aa37d819d48330c1f0e97c95aeb92371ea06690commit hash: 2aa37d819d48330c1f0e97c95aeb92371ea06690commit hash: 2aa37d819d48330c1f0e97c95aeb92371ea06690commit hash: 2aa37d819d48330c1f0e97c95aeb92371ea06690 files touched by this commit
Yuri Victorovich (yuri) search for other commits by this committer
New port: biology/seqkit: Cross-platform and ultrafast toolkit for FASTA/Q file
manipulation

Number of commits found: 36