{% set name = "sequana" %}
{% set version = "0.5.0" %}
{% set md5 = "76a30123745149ee53803fcaed67ec4c" %}

package:
  name: {{ name }}
  version: {{ version }}

source:
  fn: {{ name }}-{{ version }}.tar.gz
  url: https://pypi.io/packages/source/{{ name[0] }}/{{ name }}/{{ name }}-{{ version }}.tar.gz
  md5: {{ md5 }}


build:
  skip: True # [py27]
  preserve_egg_dir: True
  number: 0
  entry_points:
    - sequana_gui=sequana.gui.sequana_gui:main
    - sequanix=sequana.gui.sequana_gui:main
    - fastq_head=sequana.scripts.fastq_head:main
    - fastq_count=sequana.scripts.fastq_count:main
    - sequana_fastq_head=sequana.scripts.fastq_head:main
    - sequana_fastq_count=sequana.scripts.fastq_count:main
    - sequana=sequana.scripts.main:main
    - sequana_taxonomy=sequana.scripts.taxonomy:main
    - sequana_coverage=sequana.scripts.coverage:main
    - sequana_summary=sequana.scripts.summary:main
    - sequana_mapping=sequana.scripts.mapping:main
    - sequana_compressor=sequana.scripts.compressor:main
    - sequana_report=sequana.scripts.reports:main


requirements:
  build:
    - python
    - setuptools
    #- colorlog
    #- ruamel.yaml >=0.13.2
    #- qtconsole
    #- psutil
    #- mock
    #- docutils

  run:
    - python
    #- atropos ==1.0.23
    #- bcftools
    #- bedtools
    - bioservices >=1.4.14
    - biokit >=0.4.1
    #- bleach
    #- bowtie
    # - bowtie2
    #- busco ==3.0.2
    - bwa
    # - canu
    - colorlog
    - cutadapt
    - easydev >=0.9.34
    #- docutils
    #- fastq-screen
    #- fastqc
    #- freebayes
    - graphviz
    #- khmer
    - kraken # [not osx]
    - krona
    - mock
    #- multiqc
    - numexpr
    - pandas
    - pigz
    #- prokka
    - psutil
    - pyyaml
    - pyvcf
    - pysam
    - ruamel.yaml >=0.13.2
    - qtconsole
    - reports >=0.3.1
    #- sambamba
    - samtools
    - snakemake
    #- snpeff
    #- spades
    - shustring
    #- subread
    - xlrd

# prokka
# picard
# bcftools
# atropos
# matplotlib
# pygraphviz
# star
#
test:
  imports:
  #  - sequana
  #  - sequana.modules_report
  #  - sequana.pipelines
  #  - sequana.plots
  #  - sequana.scripts
  #  - sequana.sphinxext
  #  - sequana.utils
  commands:
  #  - fastq_count --help 1>out 2>err
  #  - sequana_fastq_head --help
  #  - sequana_fastq_count --help
  #  - sequana --help
  #  - sequana_taxonomy --help 1>out 2>err
  #  - sequana_coverage --help 1>out 2>err
  #  - sequanix
  #  - sequana_summary --help
  #  - sequana_mapping --help 1>out 2>err
  #  - sequana_compressor --help
  #  - sequana_report --help

about:
  home: ['http://github.com/sequana/']
  license: "BSD 3-clause"
  summary: 'A set of standalone application and pipelines dedicated to NGS (new generation sequencing) analysis'
  license_family: BSD

