| Port details |
- trimmomatic Flexible read trimming tool for Illumina NGS data
- 0.39 biology
 =0      0.39Version of this port present on the latest quarterly branch. - There is no maintainer for this port.
- Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org
- Port Added: 2016-03-17 08:21:26
- Last Update: 2024-04-06 00:12:17
- Commit Hash: 2bce913
- Also Listed In: java
- License: GPLv3
- WWW:
- http://www.usadellab.org/cms/?page=trimmomatic
- Description:
- Trimmomatic performs a variety of useful trimming tasks for illumina
NGS paired-end and single ended data.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- trimmomatic>0:biology/trimmomatic
- To install the port:
- cd /usr/ports/biology/trimmomatic/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/trimmomatic
- pkg install trimmomatic
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: trimmomatic
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1568469691
SHA256 (Trimmomatic-0.39.zip) = 2f97e3a237378d55c221abfc38e4b11ea232c8a41d511b8b4871f00c0476abca
SIZE (Trimmomatic-0.39.zip) = 133596
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Runtime dependencies:
-
- java : java/openjdk8
- This port is required by:
- for Run
-
- biology/biostar-tools
- biology/ddocent
Configuration Options:- No options to configure
- Options name:
- biology_trimmomatic
- USES:
- zip
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Number of commits found: 9
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
0.39
06 Apr 2024 00:12:17
 |
Jason W. Bacon (jwb) |
biology/trimmomatic: Release to ports@
Focusing on fastq-trim from now on. |
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) |
0.39
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  ) |
0.39
20 Jul 2022 14:20:57
|
Tobias C. Berner (tcberner) |
biology: remove 'Created by' lines
A big Thank You to the original contributors of these ports:
* Aaron Dalton <aaron@FreeBSD.org>
* Akinori MUSHA aka knu <knu@idaemons.org>
* Andrey Zakhvatov
* Bob Zimmermann <rpz@cse.wustl.edu>
* Camson Huynh <chuynh@biolateral.com.au>
* Dan Siercks <dsiercks@uwm.edu>
* Fernan Aguero <fernan@iib.unsam.edu.ar>
* Hannes Hauswedell <h2+fbsdports@fsfe.org>
* J. Bacon <jwb@FreeBSD.org>
* Jason Bacon <jwb@FreeBSD.org>
* Jeremy <karlj000@unbc.ca> (Only the first 15 lines of the commit message are shown above ) |
0.39
06 Apr 2021 14:31:07
|
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
0.39
26 Nov 2019 21:46:13
 |
jkim |
Clean up after java/openjdk6 and java/openjdk6-jre removal
java/openjdk6 support was removed from Mk/bsd.java.mk (r512662) and
java/openjdk6 and java/openjdk6-jre were removed from the ports tree
(r512663). Now this patch completely removes remaining stuff from the
ports tree.
PR: 241953 (exp-run)
Reviewed by: glewis
Approved by: portmgr (antoine)
Differential Revision: https://reviews.freebsd.org/D22342 |
0.39
14 Sep 2019 14:45:49
|
jwb |
biology/trimmomatic: Upgrade to 0.39
Add convenience script to run without knowing the location of the Java jar |
0.35
31 Jan 2018 01:07:08
|
jwb |
Multiple ports:
Change maintainer email bacon4000@gmail.com to jwb@FreeBSD.org
Remove Created by comments for same user
Approved by: jrm (mentor)
Differential Revision: https://reviews.freebsd.org/D14128 |
0.35
17 Mar 2016 08:21:14
|
wen |
Trimmomatic performs a variety of useful trimming tasks for illumina
NGS paired-end and single ended data.
WWW: http://www.usadellab.org/cms/?page=trimmomatic
PR: 208044
Submitted by: bacon4000@gmail.com |
Number of commits found: 9
|
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