# This file created by conda-build 3.19.2
# meta.yaml template originally from:
# /Users/runner/runners/2.263.0/work/bioconda-recipes/bioconda-recipes/recipes/stacks/2.3c, last modified Fri Jul  3 08:32:05 2020
# ------------------------------------------------

package:
    name: stacks
    version: 2.3c
source:
    patches:
        - at.patch
    sha256: da76f686ce05df6887e792f6ee9836be7199804a3de749866c2ddc5c2f39982e
    url: http://catchenlab.life.illinois.edu/stacks/source/stacks-2.3c.tar.gz
build:
    number: '1'
    string: h7475705_1
requirements:
    build:
        - cctools 927.0.2 h5ba7a2e_4
        - clang 9.0.1 default_hf57f61e_0
        - clang-tools 9.0.1 default_hf57f61e_0
        - clang_osx-64 9.0.1 h05bbb7f_2
        - clangxx 9.0.1 default_hf57f61e_0
        - clangxx_osx-64 9.0.1 h05bbb7f_2
        - compiler-rt 9.0.1 h6a512c6_3
        - compiler-rt_osx-64 9.0.1 h99342c6_3
        - ld64 450.3 h3c32e8a_4
        - libcxx 10.0.0 h1af66ff_2
        - libllvm9 9.0.1 h7475705_1
        - llvm-tools 9.0.1 h1341992_1
        - llvmdev 9.0.1 h7475705_1
        - tapi 1000.10.8 ha1b3eb9_4
        - zlib 1.2.11 h0b31af3_1006
    host:
        - libcxx 10.0.0 h1af66ff_2
        - zlib 1.2.11 h0b31af3_1006
    run:
        - libcxx >=9.0.1
        - perl
        - perl-bioperl-core
        - perl-file-spec
        - perl-file-temp
        - perl-posix
        - python >=3
        - samtools
        - velvet
        - zlib >=1.2.11,<1.3.0a0
        - zlib >=1.2.11,<1.3.0a0
test:
    commands:
        - command -v cstacks
        - command -v gstacks
        - command -v sstacks
        - command -v ustacks
        - command -v phasedstacks
        - command -v populations
        - command -v process_radtags
        - command -v process_shortreads
        - command -v clone_filter
        - command -v kmer_filter
        - command -v stacks-dist-extract
        - command -v stacks-integrate-alignments
        - command -v tsv2bam
        - command -v convert_stacks.pl
        - command -v count_fixed_catalog_snps.py
        - command -v denovo_map.pl
        - command -v extract_interpop_chars.pl
        - command -v integrate_alignments.py
        - command -v ref_map.pl
about:
    home: http://catchenlab.life.illinois.edu/stacks/
    license: GPL
    license_file: LICENSE
    summary: Stacks is a software pipeline for building loci from RAD-seq
extra:
    copy_test_source_files: true
    final: true
    identifiers:
        - biotools:Stacks
        - doi:10.1111/mec.12354
