svn commit: r397847 - in head/biology: . fastx-toolkit
Ruslan Makhmatkhanov
rm at FreeBSD.org
Fri Sep 25 18:33:20 UTC 2015
Author: rm
Date: Fri Sep 25 18:33:18 2015
New Revision: 397847
URL: https://svnweb.freebsd.org/changeset/ports/397847
Log:
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 at tds.net>
Added:
head/biology/fastx-toolkit/
head/biology/fastx-toolkit/Makefile (contents, props changed)
head/biology/fastx-toolkit/distinfo (contents, props changed)
head/biology/fastx-toolkit/pkg-descr (contents, props changed)
head/biology/fastx-toolkit/pkg-plist (contents, props changed)
Modified:
head/biology/Makefile
Modified: head/biology/Makefile
==============================================================================
--- head/biology/Makefile Fri Sep 25 18:31:28 2015 (r397846)
+++ head/biology/Makefile Fri Sep 25 18:33:18 2015 (r397847)
@@ -20,6 +20,7 @@
SUBDIR += fasta
SUBDIR += fasta3
SUBDIR += fastdnaml
+ SUBDIR += fastx-toolkit
SUBDIR += fluctuate
SUBDIR += garlic
SUBDIR += gff2ps
Added: head/biology/fastx-toolkit/Makefile
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/fastx-toolkit/Makefile Fri Sep 25 18:33:18 2015 (r397847)
@@ -0,0 +1,27 @@
+# Created by: Jason Bacon <jwbacon at tds.net>
+# $FreeBSD$
+
+PORTNAME= fastx_toolkit
+PORTVERSION= 0.0.14
+CATEGORIES= biology
+
+MAINTAINER= jwbacon at tds.net
+COMMENT= CLI tools for Short-Reads FASTA/FASTQ files preprocessing
+
+LICENSE= AGPLv3
+
+LIB_DEPENDS= libgtextutils.so:${PORTSDIR}/biology/libgtextutils
+
+USES= autoreconf libtool perl5 pkgconfig shebangfix tar:bzip2
+USE_PERL5= run
+SHEBANG_FILES= scripts/*.pl
+
+USE_GITHUB= yes
+GH_ACCOUNT= agordon
+GH_PROJECT= ${PORTNAME}
+
+GNU_CONFIGURE= yes
+
+CONFIGURE_ENV+= PKG_CONFIG_PATH=${PREFIX}/lib/pkgconfig
+
+.include <bsd.port.mk>
Added: head/biology/fastx-toolkit/distinfo
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/fastx-toolkit/distinfo Fri Sep 25 18:33:18 2015 (r397847)
@@ -0,0 +1,2 @@
+SHA256 (agordon-fastx_toolkit-0.0.14_GH0.tar.bz2) = af4f9fe59f8c91bdd2d735bdac1fd89f0549b2bc759313fe3b86948056aad1aa
+SIZE (agordon-fastx_toolkit-0.0.14_GH0.tar.bz2) = 259576
Added: head/biology/fastx-toolkit/pkg-descr
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/fastx-toolkit/pkg-descr Fri Sep 25 18:33:18 2015 (r397847)
@@ -0,0 +1,4 @@
+The FASTX-Toolkit is a collection of command line tools for Short-Reads
+FASTA/FASTQ files preprocessing.
+
+WWW: http://hannonlab.cshl.edu/fastx_toolkit/
Added: head/biology/fastx-toolkit/pkg-plist
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/fastx-toolkit/pkg-plist Fri Sep 25 18:33:18 2015 (r397847)
@@ -0,0 +1,23 @@
+bin/fasta_clipping_histogram.pl
+bin/fasta_formatter
+bin/fasta_nucleotide_changer
+bin/fastq_masker
+bin/fastq_quality_boxplot_graph.sh
+bin/fastq_quality_converter
+bin/fastq_quality_filter
+bin/fastq_quality_trimmer
+bin/fastq_to_fasta
+bin/fastx_artifacts_filter
+bin/fastx_barcode_splitter.pl
+bin/fastx_clipper
+bin/fastx_collapser
+bin/fastx_nucleotide_distribution_graph.sh
+bin/fastx_nucleotide_distribution_line_graph.sh
+bin/fastx_quality_stats
+bin/fastx_renamer
+bin/fastx_reverse_complement
+bin/fastx_trimmer
+bin/fastx_uncollapser
+share/aclocal/ax_c_long_long.m4
+share/aclocal/ax_cxx_compile_stdcxx_11.m4
+share/aclocal/ax_cxx_header_stdcxx_tr1.m4
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