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Port details
fastx-toolkit CLI tools for Short-Reads FASTA/FASTQ files preprocessing
0.0.14 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
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 25 Sep 2015 18:33:28
License: AGPLv3+
The FASTX-Toolkit is a collection of command line tools for Short-Reads
FASTA/FASTQ files preprocessing.

WWW: http://hannonlab.cshl.edu/fastx_toolkit/
SVNWeb : Homepage : PortsMon
    Pseudo-pkg-plist information, but much better, from make generate-plist
    Expand this list (26 items)
  1. /usr/local/share/licenses/fastx_toolkit-0.0.14/catalog.mk
  2. /usr/local/share/licenses/fastx_toolkit-0.0.14/LICENSE
  3. /usr/local/share/licenses/fastx_toolkit-0.0.14/AGPLv3+
  4. bin/fasta_clipping_histogram.pl
  5. bin/fasta_formatter
  6. bin/fasta_nucleotide_changer
  7. bin/fastq_masker
  8. bin/fastq_quality_boxplot_graph.sh
  9. bin/fastq_quality_converter
  10. bin/fastq_quality_filter
  11. bin/fastq_quality_trimmer
  12. bin/fastq_to_fasta
  13. bin/fastx_artifacts_filter
  14. bin/fastx_barcode_splitter.pl
  15. bin/fastx_clipper
  16. bin/fastx_collapser
  17. bin/fastx_nucleotide_distribution_graph.sh
  18. bin/fastx_nucleotide_distribution_line_graph.sh
  19. bin/fastx_quality_stats
  20. bin/fastx_renamer
  21. bin/fastx_reverse_complement
  22. bin/fastx_trimmer
  23. bin/fastx_uncollapser
  24. share/aclocal/ax_c_long_long.m4
  25. share/aclocal/ax_cxx_compile_stdcxx_11.m4
  26. share/aclocal/ax_cxx_header_stdcxx_tr1.m4
  27. Collapse this list.

To install the port: cd /usr/ports/biology/fastx-toolkit/ && make install clean
To add the package: pkg install fastx_toolkit

PKGNAME: fastx_toolkit

distinfo:

SHA256 (agordon-fastx_toolkit-0.0.14_GH0.tar.gz) = af4f9fe59f8c91bdd2d735bdac1fd89f0549b2bc759313fe3b86948056aad1aa
SIZE (agordon-fastx_toolkit-0.0.14_GH0.tar.gz) = 259576


NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. autoconf-2.69 : devel/autoconf
  2. autoheader-2.69 : devel/autoconf
  3. autoreconf-2.69 : devel/autoconf
  4. aclocal-1.15 : devel/automake
  5. automake-1.15 : devel/automake
  6. libtoolize : devel/libtool
  7. pkgconf>=1.3.0_1 : devel/pkgconf
Runtime dependencies:
  1. perl5>=5.26<5.27 : lang/perl5.26
Library dependencies:
  1. libgtextutils.so : biology/libgtextutils
There are no ports dependent upon this port

Configuration Options
     No options to configure

USES:
autoreconf libtool perl5 pkgconfig shebangfix

Master Sites:
  1. https://codeload.github.com/agordon/fastx_toolkit/tar.gz/0.0.14?dummy=/

Number of commits found: 8

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
16 May 2018 15:13:43
Original commit files touched by this commit  0.0.14
Revision:470124
jwb search for other commits by this committer
biology/fastx-toolkit: Fix build on FreeBSD 12

Approved by:    jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D15451
31 Jan 2018 01:07:08
Original commit files touched by this commit  0.0.14
Revision:460452
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
01 Apr 2016 13:29:17
Original commit files touched by this commit  0.0.14
Revision:412344
mat search for other commits by this committer
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
24 Mar 2016 14:12:23
Original commit files touched by this commit  0.0.14
Revision:411790
amdmi3 search for other commits by this committer
- Clarify LICENSE
- Add LICENSE_FILE
- Remove USES=tar:bzip2 (incorrect and no-op with USE_GITHUB)
- Drop unneeded (and incorrect anyway) PKG_CONFIG_PATH

Approved by:	portmgr blanket
08 Mar 2016 13:09:12
Original commit files touched by this commit  0.0.14
Revision:410613
mat search for other commits by this committer
Always set the DEFAULT github DISTFILE with .tar.gz for EXTRACT_SUFX.

Fix distinfo for the offending ports.

lang/yorick's tag was moved, and the added patch was no longer needed.

PR:			207644
Submitted by:		mat
Exp-run by by:		antoine
Sponsored by:		Absolight
Differential Revision:	https://reviews.freebsd.org/D4268
29 Dec 2015 14:30:47
Original commit files touched by this commit  0.0.14
Revision:404743
mat search for other commits by this committer
Cleanup GH_* and variables order.

Sponsored by:	Absolight
11 Dec 2015 08:48:57
Original commit files touched by this commit  0.0.14
Revision:403506
miwi search for other commits by this committer
- Update maintainer mail address
- Update/Remove MASTER_SITE

PR:		204755
Submitted by:	 jwbacon@tds.net (maintainer)
Approved by:	mat (mentor)
Differential Revision:	D4493
25 Sep 2015 18:33:18
Original commit files touched by this commit  0.0.14
Revision:397847
rm search for other commits by this committer
The FASTX-Toolkit is a collection of command line tools for Short-Reads
FASTA/FASTQ files preprocessing.

WWW: http://hannonlab.cshl.edu/fastx_toolkit/

PR:		203318
Submitted by:	Jason Bacon <jwbacon@tds.net>

Number of commits found: 8

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