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Port details
trimmomatic Flexible read trimming tool for Illumina NGS data
0.39 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 0.39Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2016-03-17 08:21:26
Last Update: 2021-04-06 14:31:07
Commit Hash: 305f148
Also Listed In: java
License: GPLv3
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (14 items)
Collapse this list.
  1. /usr/local/share/licenses/trimmomatic-0.39/catalog.mk
  2. /usr/local/share/licenses/trimmomatic-0.39/LICENSE
  3. /usr/local/share/licenses/trimmomatic-0.39/GPLv3
  4. bin/trimmomatic
  5. share/java/classes/trimmomatic.jar
  6. share/trimmomatic/adapters/NexteraPE-PE.fa
  7. share/trimmomatic/adapters/TruSeq2-PE.fa
  8. share/trimmomatic/adapters/TruSeq2-SE.fa
  9. share/trimmomatic/adapters/TruSeq3-PE-2.fa
  10. share/trimmomatic/adapters/TruSeq3-PE.fa
  11. share/trimmomatic/adapters/TruSeq3-SE.fa
  12. @owner
  13. @group
  14. @mode
Collapse this list.
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
PKGNAME: trimmomatic
Flavors: there is no flavor information for this port.
distinfo:
Packages (timestamps in pop-ups are UTC):
trimmomatic
ABIlatestquarterly
FreeBSD:11:aarch640.350.39
FreeBSD:11:amd640.390.39
FreeBSD:11:armv60.350.39
FreeBSD:11:i3860.390.39
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch640.350.39
FreeBSD:12:amd640.390.39
FreeBSD:12:armv60.35-
FreeBSD:12:armv70.35-
FreeBSD:12:i3860.390.39
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64-0.39
FreeBSD:13:aarch640.390.39
FreeBSD:13:amd640.390.39
FreeBSD:13:armv6--
FreeBSD:13:armv7-0.39
FreeBSD:13:i3860.390.39
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64-0.39
FreeBSD:14:aarch640.39-
FreeBSD:14:amd640.39-
FreeBSD:14:armv6--
FreeBSD:14:armv7--
FreeBSD:14:i3860.39-
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc640.39-
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Runtime dependencies:
  1. java : java/openjdk8
This port is required by:
for Run
  1. biology/biostar-tools
  2. biology/ddocent

Configuration Options:
Options name:

USES:

FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/
Collapse this list.

Number of commits found: 5

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
06 Apr 2021 14:31:07
 files touched by this commit commit hash:305f148f482daf30dcf728039d03d019f88344eb  0.39
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
26 Nov 2019 21:46:13
Original commit files touched by this commit Revision:518482  0.39
jkim search for other commits by this committer
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
14 Sep 2019 14:45:49
Original commit files touched by this commit Revision:512018  0.39
jwb search for other commits by this committer
biology/trimmomatic: Upgrade to 0.39

Add convenience script to run without knowing the location of the Java jar
31 Jan 2018 01:07:08
Original commit files touched by this commit Revision:460452  0.35
jwb search for other commits by this committer
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
17 Mar 2016 08:21:14
Original commit files touched by this commit Revision:411261  0.35
wen search for other commits by this committer
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: 5