stacks2: Remove following commit to biology
This commit is contained in:
parent
092f501c36
commit
e6657ec19d
1
Makefile
1
Makefile
|
@ -4405,7 +4405,6 @@ SUBDIR+= ssid
|
|||
SUBDIR+= ssu
|
||||
SUBDIR+= st-term-git
|
||||
SUBDIR+= stacks
|
||||
SUBDIR+= stacks2
|
||||
SUBDIR+= stardict
|
||||
SUBDIR+= stardict-tools
|
||||
SUBDIR+= starfighter
|
||||
|
|
|
@ -1,4 +0,0 @@
|
|||
Stacks is a software pipeline for building loci from short-read sequences, such
|
||||
as those generated on the Illumina platform. Stacks was developed to work with
|
||||
restriction enzyme-based data, such as RAD-seq, for the purpose of building
|
||||
genetic maps and conducting population genomics and phylogeography.
|
|
@ -1,26 +0,0 @@
|
|||
# $NetBSD$
|
||||
|
||||
DISTNAME= stacks-2.2
|
||||
CATEGORIES= biology
|
||||
MASTER_SITES= http://catchenlab.life.illinois.edu/stacks/source/
|
||||
|
||||
MAINTAINER= bacon@NetBSD.org
|
||||
HOMEPAGE= http://catchenlab.life.illinois.edu/stacks/
|
||||
COMMENT= Software pipeline for building loci from short-read sequences
|
||||
LICENSE= gnu-gpl-v2
|
||||
|
||||
USE_LANGUAGES= c c++14
|
||||
GCC_REQD+= 4.9
|
||||
USE_TOOLS+= bash perl:run
|
||||
GNU_CONFIGURE= yes
|
||||
|
||||
REPLACE_BASH= scripts/stacks-integrate-alignments scripts/stacks-gdb
|
||||
REPLACE_BASH+= scripts/stacks-dist-extract
|
||||
REPLACE_PERL= scripts/*.pl
|
||||
REPLACE_PYTHON= scripts/*.py
|
||||
|
||||
CFLAGS+= -fopenmp
|
||||
|
||||
.include "../../lang/python/application.mk"
|
||||
.include "../../devel/zlib/buildlink3.mk"
|
||||
.include "../../mk/bsd.pkg.mk"
|
|
@ -1,66 +0,0 @@
|
|||
@comment $NetBSD$
|
||||
bin/clone_filter
|
||||
bin/count_fixed_catalog_snps.py
|
||||
bin/cstacks
|
||||
bin/denovo_map.pl
|
||||
bin/gstacks
|
||||
bin/integrate_alignments.py
|
||||
bin/kmer_filter
|
||||
bin/phasedstacks
|
||||
bin/populations
|
||||
bin/process_radtags
|
||||
bin/process_shortreads
|
||||
bin/ref_map.pl
|
||||
bin/sstacks
|
||||
bin/stacks-dist-extract
|
||||
bin/stacks-gdb
|
||||
bin/stacks-integrate-alignments
|
||||
bin/tsv2bam
|
||||
bin/ustacks
|
||||
share/stacks/php/CatalogClass.php
|
||||
share/stacks/php/Locus.php
|
||||
share/stacks/php/ajax.js
|
||||
share/stacks/php/annotate.js
|
||||
share/stacks/php/annotate_marker.php
|
||||
share/stacks/php/catalog.php
|
||||
share/stacks/php/catalog_genotypes.php
|
||||
share/stacks/php/constants.php.dist
|
||||
share/stacks/php/correct_genotype.php
|
||||
share/stacks/php/correct_genotypes.php
|
||||
share/stacks/php/db_functions.php
|
||||
share/stacks/php/export.js
|
||||
share/stacks/php/export_batch.php
|
||||
share/stacks/php/fst_view.php
|
||||
share/stacks/php/hapstat_view.php
|
||||
share/stacks/php/header.php
|
||||
share/stacks/php/images/caret-d.png
|
||||
share/stacks/php/images/caret-u.png
|
||||
share/stacks/php/images/excel_icon.png
|
||||
share/stacks/php/images/l-arrow-disabled.png
|
||||
share/stacks/php/images/l-arrow.png
|
||||
share/stacks/php/images/r-arrow-disabled.png
|
||||
share/stacks/php/images/r-arrow.png
|
||||
share/stacks/php/images/stacks_bg.png
|
||||
share/stacks/php/images/stacks_logo_rev_small.png
|
||||
share/stacks/php/index.php
|
||||
share/stacks/php/last_modified.php
|
||||
share/stacks/php/phist_view.php
|
||||
share/stacks/php/pop_view.php
|
||||
share/stacks/php/population_view.js
|
||||
share/stacks/php/samples.php
|
||||
share/stacks/php/sequence_blast.php
|
||||
share/stacks/php/stack_view.php
|
||||
share/stacks/php/stacks.css
|
||||
share/stacks/php/stacks.js
|
||||
share/stacks/php/stacks_functions.php
|
||||
share/stacks/php/sumstat_view.php
|
||||
share/stacks/php/tag.php
|
||||
share/stacks/php/tags.php
|
||||
share/stacks/php/version.php
|
||||
share/stacks/php/view_sequence.php
|
||||
share/stacks/sql/catalog_index.sql
|
||||
share/stacks/sql/chr_index.sql
|
||||
share/stacks/sql/mysql.cnf.dist
|
||||
share/stacks/sql/stacks.sql
|
||||
share/stacks/sql/tag_index.sql
|
||||
@pkgdir share/stacks/php/export
|
|
@ -1,6 +0,0 @@
|
|||
$NetBSD$
|
||||
|
||||
SHA1 (stacks-2.2.tar.gz) = ee99798378b906f356c23da0073d0361440263bf
|
||||
RMD160 (stacks-2.2.tar.gz) = 2f5097c668d9662dbbec705fe3bf00216c11d388
|
||||
SHA512 (stacks-2.2.tar.gz) = f1cffd12313fed1c171af46f9fb501373b43d57cd3004edae1034074f43169d43398743cf625ffa21be412c808ba1168513a33c63377ee13dd056406fa222095
|
||||
Size (stacks-2.2.tar.gz) = 10822973 bytes
|
Loading…
Reference in New Issue