{% set name = "UVP" %}
{% set version = "2.6.0" %}
{% set sha256 = "99f74dab0f58c737cd92ee4efc04e4cb2059b641dcfb296a94bceedac3d028ab" %}

package:
    name: {{ name|lower }}
    version: {{ version }}
source:
  url: https://github.com/CPTR-ReSeqTB/{{ name }}/archive/v{{ version }}.tar.gz
  sha256: {{ sha256 }}

build:
  number: '0'
  noarch: python
  script: "{{ PYTHON }} -m pip install . --no-deps --ignore-installed --no-cache-dir -vvv"

requirements:
  host:
    - python
    - pip
  run:
    - python
    - pyyaml 5.1
    - bedtools 2.17.0
    - bcftools 1.2
    - bwa 0.7.12
    - fastqc 0.11.5
    - fqtools 2.0
    - openjdk 8
    - gatk 3.6
    - kraken 0.10.5
    - picard 1.141
    - prinseq 0.20.4
    - pigz 2.3.4
    - qualimap 2.1.3
    - samtools 1.2
    - snpeff 4.1
    - perl-vcftools-vcf 0.1.16
    - vcftools 0.1.16

test:
    commands:
        - uvp -h
about:
    home: https://github.com/CPTR-ReSeqTB/UVP
    license: MIT
    license_file: LICENSE
    summary: A Unified Variant Pipeline to identify variants and assign lineage from MTBC sequence data.

Add Unified Variant Analysis Pipeline (UVP) for M. tuberculosis analysis
Add Unified Variant Analysis Pipeline (UVP) for M. tuberculosis analysis

* Add UVP

* unpin python
