| Port details |
- seqkit Cross-platform and ultrafast toolkit for FASTA/Q file manipulation
- 2.4.0_1 biology
 =0      Version of this port present on the latest quarterly branch. - Maintainer: yuri@FreeBSD.org
- Port Added: 2021-04-16 21:06:12
- Last Update: 2023-03-21 12:53:48
- Commit Hash: bd71c9d
- License: MIT
- 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.
  ¦  ¦  ¦  ¦  - 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 = 1679152309
SHA256 (go/biology_seqkit/seqkit-v2.4.0/v2.4.0.mod) = b2e9bfdf3899c8c4f9a736e0a18599ec36784db188fbce8c4dc1e578a7bfe2f8
SIZE (go/biology_seqkit/seqkit-v2.4.0/v2.4.0.mod) = 2391
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:
-
- go120 : lang/go120
- Fetch dependencies:
-
- go120 : lang/go120
- 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 |
|---|
2.4.0_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 |
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