# This file created by conda-build 3.18.9
# meta.yaml template originally from:
# /opt/recipe, last modified Thu Oct 31 23:23:11 2019
# ------------------------------------------------

package:
    name: trinity
    version: 2.8.5
source:
    patches:
        - patch
    sha256: eef3691aee5dbc73d8ce609f82912d3d0ae81eabced5fa61d1e53dbfe37cf3dc
    url: https://github.com/trinityrnaseq/trinityrnaseq/archive/Trinity-v2.8.5.tar.gz
build:
    number: '4'
    string: h8b12597_4
requirements:
    build:
        - _libgcc_mutex 0.1 main
        - autoconf 2.69 pl526h14c3975_9
        - binutils_impl_linux-64 2.31.1 h7fc9f1b_2
        - binutils_linux-64 2.31.1 h6176602_12
        - bzip2 1.0.8 h516909a_1
        - ca-certificates 2019.9.11 hecc5488_0
        - cmake 3.15.5 hf94ab9c_0
        - curl 7.65.3 hf8cf82a_0
        - expat 2.2.5 he1b5a44_1004
        - gcc_impl_linux-64 7.3.0 habb00fd_2
        - gcc_linux-64 7.3.0 h553295d_12
        - gxx_impl_linux-64 7.3.0 hdf63c60_2
        - gxx_linux-64 7.3.0 h553295d_12
        - krb5 1.16.3 h05b26f9_1001
        - libcurl 7.65.3 hda55be3_0
        - libedit 3.1.20170329 hf8c457e_1001
        - libgcc-ng 9.1.0 hdf63c60_0
        - libssh2 1.8.2 h22169c7_2
        - libstdcxx-ng 9.1.0 hdf63c60_0
        - libuv 1.33.1 h516909a_0
        - m4 1.4.18 h14c3975_1001
        - ncurses 6.1 hf484d3e_1002
        - openssl 1.1.1c h516909a_0
        - perl 5.26.2 h516909a_1006
        - rhash 1.3.6 h14c3975_1001
        - tk 8.6.9 hed695b0_1003
        - xz 5.2.4 h14c3975_1001
        - zlib 1.2.11 h516909a_1006
    host:
        - _libgcc_mutex 0.1 main
        - libgcc-ng 9.1.0 hdf63c60_0
        - libstdcxx-ng 9.1.0 hdf63c60_0
        - zlib 1.2.11 h516909a_1006
    run:
        - bowtie
        - bowtie2 >=2.3.0
        - kmer-jellyfish >=2.2
        - libgcc-ng >=7.3.0
        - libstdcxx-ng >=7.3.0
        - numpy
        - openjdk >=8
        - perl
        - python
        - salmon >=0.9.1,<1.0
        - samtools >=1.3
        - trimmomatic >=0.36
        - zlib >=1.2.11,<1.3.0a0
        - zlib >=1.2.11,<1.3.0a0
test:
    commands:
        - Trinity --cite
        - align_and_estimate_abundance.pl --help || [[ "$?" == 255 ]]
        - abundance_estimates_to_matrix.pl --help || [[ "$?" == 255 ]]
        - run_DE_analysis.pl -h || [[ "$?" == 255 ]]
        - analyze_diff_expr.pl -h || [[ "$?" == 255 ]]
        - PtR --help || [[ "$?" == 255 ]]
        - TrinityStats.pl 2>&1 | grep "usage:"
        - define_clusters_by_cutting_tree.pl 2>&1 | grep "define K clusters via k-means
            algorithm"
        - Trinity_gene_splice_modeler.py --help
about:
    home: https://github.com/trinityrnaseq/trinityrnaseq/
    license: BSD-3-Clause
    summary: Trinity RNA-Seq de novo transcriptome assembly
extra:
    copy_test_source_files: true
    final: true
    identifiers:
        - biotools:trinity
