Port details |
- seqkit Cross-platform and ultrafast toolkit for FASTA/Q file manipulation
- 2.9.0 biology =2 2.8.2_3Version of this port present on the latest quarterly branch.
- Maintainer: yuri@FreeBSD.org
- Port Added: 2021-04-16 21:06:12
- Last Update: 2024-11-05 01:26:42
- Commit Hash: 3f3bc2b
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- 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.
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- 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 = 1730758967
SHA256 (go/biology_seqkit/seqkit-v2.9.0/v2.9.0.mod) = 13322621d4d5cc45785b0acb9170f81086c89d6b2a0ca98c926bc48e5d54f85f
SIZE (go/biology_seqkit/seqkit-v2.9.0/v2.9.0.mod) = 2514
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- go121 : lang/go121
- Fetch dependencies:
-
- go121 : lang/go121
- ca_root_nss>0 : security/ca_root_nss
- This port is required by:
- for Run
-
- 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:
|
Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
Commit | Credits | Log message |
2.9.0 05 Nov 2024 01:26:42 |
Yuri Victorovich (yuri) Author: Älven |
biology/seqkit: update 2.8.2 → 2.9.0
PR: 282554 |
2.8.2_3 09 Aug 2024 06:24:08 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update |
2.8.2_2 03 Jul 2024 08:29:54 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update |
2.8.2_1 15 Jun 2024 09:52:17 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update
MFH: 2024Q2 |
2.8.2 18 May 2024 16:52:19 |
Yuri Victorovich (yuri) |
biology/seqkit: update 2.8.1 → 2.8.2
Reported by: portscout |
2.8.1_2 13 May 2024 17:56:04 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update
MFH: 2024Q2 |
2.8.1_1 15 Apr 2024 08:20:04 |
Ashish SHUKLA (ashish) |
all: Bump after lang/go121 update
MFH: 2024Q2 |
2.8.1 13 Apr 2024 08:54:32 |
Yuri Victorovich (yuri) |
biology/seqkit: update 2.8.0 → 2.8.1
Reported by: portscout |
2.8.0_1 24 Mar 2024 14:29:00 |
Muhammad Moinur Rahman (bofh) |
lang/go: Change DEFAULT to 1.21
PR: 277776
Approved by: portmgr (exp-run) |
2.8.0 12 Mar 2024 19:42:11 |
Yuri Victorovich (yuri) |
biology/seqkit: update 2.7.0 → 2.8.0
Reported by: portscout |
2.7.0 08 Mar 2024 22:34:42 |
Yuri Victorovich (yuri) |
biology/seqkit: update 2.6.1 → 2.7.0
Reported by: portscout |
2.6.1_2 11 Feb 2024 10:39:17 |
Ashish SHUKLA (ashish) |
all: Bump PORTREVISION after lang/go* update
PR: 276530 |
2.6.1_1 07 Dec 2023 02:22:10 |
Ashish SHUKLA (ashish) |
all: Bump PORTREVISION after lang/go* update
PR: 274405 |
2.6.1 19 Nov 2023 09:36:26 |
Yuri Victorovich (yuri) |
biology/seqkit: update 2.6.0 → 2.6.1
Reported by: portscout |
2.6.0 13 Nov 2023 23:34:21 |
Yuri Victorovich (yuri) |
biology/seqkit: update 2.5.1 → 2.6.0
Reported by: portscout |
2.5.1_1 08 Sep 2023 14:34:56 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go* update |
2.5.1 09 Aug 2023 05:52:28 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.5.0 → 2.5.1
Reported by: portscout |
2.5.0_1 04 Aug 2023 14:24:50 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{119,120} update |
2.5.0 17 Jul 2023 04:37:53 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.4.0 → 2.5.0
Reported by: portscout |
2.4.0_2 08 Apr 2023 15:13:25 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{119,120} update |
2.4.0_1 21 Mar 2023 12:53:48 |
Robert Clausecker (fuz) |
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 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.3.1 → 2.4.0
Reported by: portscout |
2.3.1_6 09 Mar 2023 19:18:07 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after Go ports update |
2.3.1_5 15 Feb 2023 19:06:01 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{119,120} update |
2.3.1_4 09 Feb 2023 21:55:23 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after GO_DEFAULT update. |
2.3.1_3 14 Jan 2023 11:31:17 |
Dmitri Goutnik (dmgk) |
all: Bump PORTVERSION after lang/go{118,119} update |
2.3.1_2 11 Dec 2022 11:17:27 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{118,119} update |
2.3.1_1 06 Oct 2022 19:24:26 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{118,119} update |
2.3.1 25 Sep 2022 02:45:15 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.3.0 -> 2.3.1
Reported by: portscout |
2.3.0_1 08 Sep 2022 16:33:18 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{118,119} update |
07 Sep 2022 21:58:51 |
Stefan Eßer (se) |
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 |
Stefan Eßer (se) |
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 ) |
2.3.0 04 Sep 2022 22:15:19 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.2.0 -> 2.3.0
Reported by: portscout |
2.2.0_3 03 Aug 2022 21:35:13 |
Dmitri Goutnik (dmgk) |
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 |
Dmitri Goutnik (dmgk) |
all: Bump PORTREVISION after lang/go{117,118} update |
2.2.0_1 07 Jun 2022 21:56:10 |
Dmitri Goutnik (dmgk) |
*/*: Bump port revisons after lang/go{117,118} update |
2.2.0 20 Apr 2022 03:44:55 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.1.0 -> 2.2.0
Reported by: portscout |
2.1.0_1 30 Mar 2022 07:01:44 |
Guangyuan Yang (ygy) |
*/*: Bump PORTREVISION after lang/go 1.18 update |
2.1.0 16 Nov 2021 18:57:47 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 2.0.1 -> 2.1.0
Reported by: portscout |
2.0.1 18 Sep 2021 17:48:26 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 0.16.1 -> 2.0.1 |
0.16.1 14 Aug 2021 18:53:27 |
Yuri Victorovich (yuri) |
biology/seqkit: Add 'test' target |
0.16.1 20 May 2021 06:02:26 |
Yuri Victorovich (yuri) |
biology/seqkit: Update 0.16.0 -> 0.16.1
Reported by: portscout |
0.16.0 17 Apr 2021 04:00:56 |
Yuri Victorovich (yuri) |
biology/seqkit: Change WWW to the project URL (from GitHub URL) |
0.16.0 16 Apr 2021 21:04:16 |
Yuri Victorovich (yuri) |
New port: biology/seqkit: Cross-platform and ultrafast toolkit for FASTA/Q file
manipulation |