# This file created by conda-build 3.19.2
# meta.yaml template originally from:
# /Users/distiller/project/recipes/hiline, last modified Fri Mar 12 02:46:14 2021
# ------------------------------------------------

package:
    name: hiline
    version: 0.2.2
source:
    sha256: b37c02d589685aa4351b24f4c6f39495b97d2b1e23538fb8ae2d6ae2cd4550d1
    url: https://github.com/wtsi-hpag/HiLine/archive/0.2.2.tar.gz
build:
    number: '1'
    script: /Users/distiller/project/miniconda/conda-bld/hiline_1615546401682/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/bin/python
        -m pip install . --no-deps --ignore-installed --no-cache-dir -vvv
    string: py38ha1b3eb9_1
requirements:
    build:
        - bzip2 1.0.8 hc929b4f_4
        - c-ares 1.17.1 h0d85af4_1
        - ca-certificates 2020.12.5 h033912b_0
        - cctools 949.0.1 h22b1bf0_0
        - cctools_osx-64 949.0.1 h5ba7a2e_0
        - clang 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
        - cmake 3.19.6 h641592c_0
        - compiler-rt 9.0.1 h6a512c6_3
        - compiler-rt_osx-64 9.0.1 h99342c6_3
        - curl 7.75.0 h06286d4_0
        - expat 2.2.10 h1c7c35f_0
        - gettext 0.19.8.1 h7937167_1005
        - git 2.30.2 pl5320hbb84d65_0
        - krb5 1.17.2 h60d9502_0
        - ld64 530 0
        - ld64_osx-64 530 h3c32e8a_0
        - libcurl 7.75.0 h8ef9fac_0
        - libcxx 11.1.0 habf9029_0
        - libedit 3.1.20191231 h0678c8f_2
        - libev 4.33 haf1e3a3_1
        - libffi 3.3 h046ec9c_2
        - libiconv 1.16 haf1e3a3_0
        - libllvm9 9.0.1 h223d4b2_3
        - libnghttp2 1.43.0 h07e645a_0
        - libssh2 1.9.0 h52ee1ee_6
        - libuv 1.41.0 hbcf498f_0
        - llvm-tools 9.0.1 h223d4b2_3
        - lz4-c 1.9.3 h046ec9c_0
        - ncurses 6.2 h2e338ed_4
        - openssl 1.1.1j hbcf498f_0
        - pcre 8.44 hb1e8313_0
        - perl 5.32.0 hbcb3906_0
        - pkg-config 0.29.2 h31203cd_1008
        - pkgconfig 1.5.2 py39h6e9494a_0
        - python 3.9.2 h2502468_0_cpython
        - python_abi 3.9 1_cp39
        - readline 8.0 h0678c8f_2
        - rhash 1.4.1 h35c211d_0
        - sqlite 3.34.0 h17101e1_0
        - tapi 1000.10.8 h879752b_4
        - tk 8.6.10 h0419947_1
        - tzdata 2021a he74cb21_0
        - xz 5.2.5 haf1e3a3_1
        - zlib 1.2.11 h7795811_1010
        - zstd 1.4.9 h582d3a0_0
    host:
        - boost-cpp 1.75.0 ha8c80a0_0
        - bzip2 1.0.8 hc929b4f_4
        - ca-certificates 2020.12.5 h033912b_0
        - certifi 2020.12.5 py38h50d1736_1
        - icu 68.1 h74dc148_0
        - libblas 3.9.0 8_openblas
        - libcblas 3.9.0 8_openblas
        - libcxx 11.1.0 habf9029_0
        - libffi 3.3 h046ec9c_2
        - libgfortran 5.0.0 9_3_0_h6c81a4c_19
        - libgfortran5 9.3.0 h6c81a4c_19
        - liblapack 3.9.0 8_openblas
        - libopenblas 0.3.12 openmp_h54245bb_1
        - llvm-openmp 11.0.1 h7c73e74_0
        - lz4-c 1.9.3 h046ec9c_0
        - ncurses 6.2 h2e338ed_4
        - ninja 1.10.2 h9a9d8cb_0
        - numpy 1.20.1 py38h64deac9_0
        - openssl 1.1.1j hbcf498f_0
        - pcre 8.44 hb1e8313_0
        - pip 21.0.1 pyhd8ed1ab_0
        - python 3.8.8 h4e93d89_0_cpython
        - python_abi 3.8 1_cp38
        - ragel 6.10 h0a44026_1002
        - readline 8.0 h0678c8f_2
        - setuptools 49.6.0 py38h50d1736_3
        - sqlite 3.34.0 h17101e1_0
        - tk 8.6.10 h0419947_1
        - wheel 0.36.2 pyhd3deb0d_0
        - xz 5.2.5 haf1e3a3_1
        - zlib 1.2.11 h7795811_1010
        - zstd 1.4.9 h582d3a0_0
    run:
        - biopython >=1.76
        - bwa >=0.7.17
        - click >=7.0
        - gawk >=5.1.0
        - libcxx >=9.0.1
        - matplotlib-base >=3.2.0
        - minimap2 >=2.17
        - numpy >=1.20.1,<2.0a0
        - pandas >=1.0.1
        - pcre >=8.44,<9.0a0
        - perl >=5.30.3
        - python >=3.8,<3.9.0a0
        - python_abi 3.8.* *_cp38
        - samtools >=1.10
        - seaborn >=0.10.0
test:
    commands:
        - HiLine --help
    imports:
        - HiLine
about:
    description: 'This is a HiC short-read alignment pipeline. It will perform an
        alignment, or read in an external alignment, perform optional duplicate-read
        marking, perform HiC read classification based on an in-slico restriction
        digest of reference sequences and finally split the output alignments based
        on HiC read-type. It can also optionally process and output HiC alignment
        statistics. Under the hood, it uses bwa mem and samtools to perform and process
        alignments. It also uses a custom C++ Python extension to perform the in-silico
        digest (using the Hyperscan (https://github.com/intel/hyperscan) regex library)
        and subsequent HiC classification.

        '
    home: https://github.com/wtsi-hpag/HiLine
    license: MIT
    license_family: MIT
    license_file: LICENSE
    summary: HiC alignment and classification pipeline.
extra:
    copy_test_source_files: true
    final: true
