# This file created by conda-build 24.7.1
# meta.yaml template originally from:
# /opt/recipe, last modified Mon Jun 30 10:53:33 2025
# ------------------------------------------------

package:
  name: tb-profiler
  version: 6.6.4
source:
  sha256: 06a7ae9710adc051233ef6c122018231ba66610704641fdfcc6dd2f7ee6f01fb
  url: https://github.com/jodyphelan/TBProfiler/archive/v6.6.4.tar.gz
build:
  noarch: python
  number: '0'
  run_exports:
    - tb-profiler >=6.6.4,<7.0a0
  string: pyhdfd78af_0
requirements:
  host:
    - _libgcc_mutex 0.1 conda_forge
    - _openmp_mutex 4.5 2_gnu
    - alsa-lib 1.2.14 hb9d3cd8_0
    - annotated-types 0.7.0 pyhd8ed1ab_1
    - babel 2.17.0 pyhd8ed1ab_0
    - bcftools 1.22 h3a4d415_1
    - bedtools 2.31.1 h13024bc_3
    - bitarray 3.4.2 py312h66e93f0_0
    - bitstring 4.3.1 pyhd8ed1ab_0
    - black 24.10.0 py312h7900ff3_0
    - boost-cpp 1.85.0 h3c6214e_4
    - brotli 1.1.0 hb9d3cd8_3
    - brotli-bin 1.1.0 hb9d3cd8_3
    - brotli-python 1.1.0 py312h2ec8cdc_3
    - bwa 0.7.19 h577a1d6_1
    - bzip2 1.0.8 h4bc722e_7
    - c-ares 1.34.5 hb9d3cd8_0
    - ca-certificates 2025.6.15 hbd8a1cb_0
    - cachetools 5.5.2 pyhd8ed1ab_0
    - cairo 1.18.4 h3394656_0
    - certifi 2025.6.15 pyhd8ed1ab_0
    - cffi 1.17.1 py312h06ac9bb_0
    - charset-normalizer 3.4.2 pyhd8ed1ab_0
    - click 8.2.1 pyh707e725_0
    - colorama 0.4.6 pyhd8ed1ab_1
    - contourpy 1.3.2 py312h68727a3_0
    - cycler 0.12.1 pyhd8ed1ab_1
    - delly 1.3.3 h4d20210_1
    - deprecation 2.1.0 pyh9f0ad1d_0
    - docxcompose 1.4.0 pyhd8ed1ab_1
    - docxtpl 0.19.0 pyhd8ed1ab_0
    - dsk 2.3.3 h5ca1c30_6
    - fastahack 2016.07.2 h4ac6f70_6
    - filelock 3.18.0 pyhd8ed1ab_0
    - font-ttf-dejavu-sans-mono 2.37 hab24e00_0
    - font-ttf-inconsolata 3.000 h77eed37_0
    - font-ttf-source-code-pro 2.038 h77eed37_0
    - font-ttf-ubuntu 0.83 h77eed37_3
    - fontconfig 2.15.0 h7e30c49_1
    - fonts-conda-ecosystem 1 0
    - fonts-conda-forge 1 0
    - fonttools 4.58.4 py312h178313f_0
    - freebayes 1.3.6 hb0f3ef8_7
    - freetype 2.13.3 ha770c72_1
    - gatk4 4.6.2.0 py310hdfd78af_0
    - giflib 5.2.2 hd590300_0
    - git 2.49.0 pl5321hc2ff736_1
    - graphite2 1.3.14 h5888daf_0
    - gsl 2.7 he838d99_0
    - h2 4.2.0 pyhd8ed1ab_0
    - harfbuzz 11.2.1 h3beb420_0
    - hpack 4.1.0 pyhd8ed1ab_0
    - htslib 1.22 h566b1c6_0
    - hyperframe 6.1.0 pyhd8ed1ab_0
    - icu 75.1 he02047a_0
    - idna 3.10 pyhd8ed1ab_1
    - itol-config 0.1.0 pyhdfd78af_0
    - jinja2 3.1.6 pyhd8ed1ab_0
    - joblib 1.5.1 pyhd8ed1ab_0
    - k8 1.2 he8db53b_6
    - kernel-headers_linux-64 3.10.0 he073ed8_18
    - keyutils 1.6.1 h166bdaf_0
    - kiwisolver 1.4.8 py312h84d6215_0
    - kmc 3.2.4 haf24da9_3
    - krb5 1.21.3 h659f571_0
    - lcms2 2.17 h717163a_0
    - ld_impl_linux-64 2.43 h1423503_5
    - lerc 4.0.0 h0aef613_1
    - libasprintf 0.24.1 h8e693c7_0
    - libblas 3.9.0 32_h59b9bed_openblas
    - libboost 1.85.0 h0ccab89_4
    - libboost-devel 1.85.0 h00ab1b0_4
    - libboost-headers 1.85.0 ha770c72_4
    - libbrotlicommon 1.1.0 hb9d3cd8_3
    - libbrotlidec 1.1.0 hb9d3cd8_3
    - libbrotlienc 1.1.0 hb9d3cd8_3
    - libcblas 3.9.0 32_he106b2a_openblas
    - libcups 2.3.3 hb8b1518_5
    - libcurl 8.14.1 h332b0f4_0
    - libdeflate 1.22 hb9d3cd8_0
    - libedit 3.1.20250104 pl5321h7949ede_0
    - libev 4.33 hd590300_2
    - libexpat 2.7.0 h5888daf_0
    - libffi 3.4.6 h2dba641_1
    - libfreetype 2.13.3 ha770c72_1
    - libfreetype6 2.13.3 h48d6fc4_1
    - libgcc 15.1.0 h767d61c_3
    - libgcc-ng 15.1.0 h69a702a_3
    - libgettextpo 0.24.1 h5888daf_0
    - libgfortran 15.1.0 h69a702a_3
    - libgfortran5 15.1.0 hcea5267_3
    - libglib 2.84.2 h3618099_0
    - libgomp 15.1.0 h767d61c_3
    - libiconv 1.18 h4ce23a2_1
    - libidn2 2.3.8 ha4ef2c3_0
    - libjpeg-turbo 3.1.0 hb9d3cd8_0
    - liblapack 3.9.0 32_h7ac8fdf_openblas
    - liblzma 5.8.1 hb9d3cd8_2
    - liblzma-devel 5.8.1 hb9d3cd8_2
    - libnghttp2 1.64.0 h161d5f1_0
    - libnsl 2.0.1 hb9d3cd8_1
    - libopenblas 0.3.30 pthreads_h94d23a6_0
    - libpng 1.6.49 h943b412_0
    - libsqlite 3.50.2 h6cd9bfd_0
    - libssh2 1.11.1 hcf80075_0
    - libstdcxx 15.1.0 h8f9b012_3
    - libstdcxx-ng 15.1.0 h4852527_3
    - libtiff 4.7.0 hc4654cb_2
    - libunistring 0.9.10 h7f98852_0
    - libuuid 2.38.1 h0b41bf4_0
    - libwebp-base 1.5.0 h851e524_0
    - libxcb 1.17.0 h8a09558_0
    - libxcrypt 4.4.36 hd590300_1
    - libxml2 2.13.8 h4bc477f_0
    - libxslt 1.1.39 h76b75d6_0
    - libzlib 1.3.1 hb9d3cd8_2
    - lofreq 2.1.5 py312ha5e83ca_15
    - lxml 6.0.0 py312h68d7fa5_0
    - markdown-it-py 3.0.0 pyhd8ed1ab_1
    - markupsafe 3.0.2 py312h178313f_1
    - matplotlib-base 3.10.3 py312hd3ec401_0
    - mdurl 0.1.2 pyhd8ed1ab_1
    - minimap2 2.30 h577a1d6_0
    - munkres 1.1.4 pyhd8ed1ab_1
    - mypy_extensions 1.1.0 pyha770c72_0
    - ncurses 6.5 h2d0b736_3
    - numpy 2.3.0 py312h6cf2f7f_0
    - openjdk 17.0.15 h5ddf6bc_0
    - openjpeg 2.5.3 h5fbd93e_0
    - openssl 3.5.0 h7b32b05_1
    - packaging 25.0 pyh29332c3_1
    - pandas 2.3.0 py312hf9745cd_0
    - parallel 20250622 ha770c72_0
    - pathogen-profiler 5.0.2 pyh7e72e81_0
    - pathspec 0.12.1 pyhd8ed1ab_1
    - pcre2 10.45 hc749103_0
    - perl 5.32.1 7_hd590300_perl5
    - pillow 11.2.1 py312h80c1187_0
    - pilon 1.24 hdfd78af_0
    - pip 25.1.1 pyh8b19718_0
    - pixman 0.46.2 h29eaf8c_0
    - platformdirs 4.3.8 pyhe01879c_0
    - pthread-stubs 0.4 hb9d3cd8_1002
    - pycparser 2.22 pyh29332c3_1
    - pydantic 2.11.7 pyh3cfb1c2_0
    - pydantic-core 2.33.2 py312h680f630_0
    - pygments 2.19.2 pyhd8ed1ab_0
    - pyparsing 3.2.3 pyhd8ed1ab_1
    - pysam 0.23.3 py312h47d5410_0
    - pysocks 1.7.1 pyha55dd90_7
    - python 3.12.11 h9e4cc4f_0_cpython
    - python-dateutil 2.9.0.post0 pyhe01879c_2
    - python-docx 1.2.0 pyhff2d567_0
    - python-tzdata 2025.2 pyhd8ed1ab_0
    - python_abi 3.12 7_cp312
    - pytz 2025.2 pyhd8ed1ab_0
    - pyyaml 6.0.2 py312h178313f_2
    - qhull 2020.2 h434a139_5
    - readline 8.2 h8c095d6_2
    - requests 2.32.4 pyhd8ed1ab_0
    - rich 14.0.0 pyh29332c3_0
    - rich-argparse 1.7.1 pyhd8ed1ab_0
    - samclip 0.4.0 hdfd78af_1
    - samtools 1.22 h96c455f_0
    - scipy 1.16.0 py312hf734454_0
    - screed 1.1.3 pyhd8ed1ab_0
    - seqkit 2.10.0 h9ee0642_0
    - setuptools 80.9.0 pyhff2d567_0
    - six 1.17.0 pyhd8ed1ab_0
    - snpeff 5.2 hdfd78af_1
    - sourmash 4.9.3 hdfd78af_0
    - sourmash-minimal 4.9.3 py312h47ec9a3_0
    - sysroot_linux-64 2.17 h0157908_18
    - tabixpp 1.1.2 hbefcdb2_4
    - tk 8.6.13 noxft_hd72426e_102
    - tomli 2.2.1 pyhd8ed1ab_1
    - tqdm 4.67.1 pyhd8ed1ab_1
    - trimmomatic 0.39 hdfd78af_2
    - typing-extensions 4.14.0 h32cad80_0
    - typing-inspection 0.4.1 pyhd8ed1ab_0
    - typing_extensions 4.14.0 pyhe01879c_0
    - tzdata 2025b h78e105d_0
    - unicodedata2 16.0.0 py312h66e93f0_0
    - urllib3 2.5.0 pyhd8ed1ab_0
    - vcflib 1.0.14 h34261f4_0
    - wget 1.21.4 hda4d442_0
    - wheel 0.45.1 pyhd8ed1ab_1
    - xorg-libice 1.1.2 hb9d3cd8_0
    - xorg-libsm 1.2.6 he73a12e_0
    - xorg-libx11 1.8.12 h4f16b4b_0
    - xorg-libxau 1.0.12 hb9d3cd8_0
    - xorg-libxdmcp 1.1.5 hb9d3cd8_0
    - xorg-libxext 1.3.6 hb9d3cd8_0
    - xorg-libxfixes 6.0.1 hb9d3cd8_0
    - xorg-libxi 1.8.2 hb9d3cd8_0
    - xorg-libxrandr 1.5.4 hb9d3cd8_0
    - xorg-libxrender 0.9.12 hb9d3cd8_0
    - xorg-libxt 1.3.1 hb9d3cd8_0
    - xorg-libxtst 1.2.5 hb9d3cd8_3
    - xz 5.8.1 hbcc6ac9_2
    - xz-gpl-tools 5.8.1 hbcc6ac9_2
    - xz-tools 5.8.1 hb9d3cd8_2
    - yaml 0.2.5 h7f98852_2
    - zlib 1.3.1 hb9d3cd8_2
    - zstandard 0.23.0 py312h66e93f0_2
    - zstd 1.5.7 hb8e6e7a_2
  run:
    - docxtpl
    - filelock
    - git
    - jinja2
    - joblib
    - pathogen-profiler =5.0.2
    - pysam
    - python >=3.8
    - pyyaml
    - rich-argparse
    - tqdm
test:
  commands:
    - tb-profiler
  imports:
    - pathogenprofiler
    - tbprofiler
about:
  home: https://github.com/jodyphelan/TBProfiler
  license: GPL-3.0-or-later
  license_family: GPL3
  license_file: LICENSE
  summary: Profiling tool for Mycobacterium tuberculosis to detect drug resistance
    and lineage from sequencing data
extra:
  copy_test_source_files: true
  final: true
  identifiers:
    - doi:10.1186/s13073-019-0650-x
