easyblock = 'MakeCp'

name = 'psmc'
version = '0.6.5'

homepage = 'https://github.com/lh3/psmc'
description = """This software package infers population size history from a diploid sequence
using the Pairwise Sequentially Markovian Coalescent (PSMC) model."""
 
toolchain = {'name': 'foss', 'version': '2016a'}

source_urls = ['https://github.com/lh3/psmc/archive/']
sources = ['%(version)s.tar.gz']

buildopts = '&& cd utils && make'

utils = [
    'avg.pl', 'calD', 'cntcpg', 'ctime_plot.pl', 'dec2ctime.pl', 'decode2bed.pl', 'fq2psmcfa', 'history2ms.pl',
    'ms2psmcfa.pl', 'mutDiff', 'pcnt_bezier.lua', 'psmc2history.pl', 'psmc_plot.pl', 'psmc_trunc.pl', 'splitfa', 
]

files_to_copy = [
    (['psmc'], 'bin'),
    (['utils/%s' % util for util in utils], 'bin')
]

sanity_check_paths = {
    'files': ['bin/psmc'] + ['bin/%s' % util for util in utils],
    'dirs': [],
}

moduleclass = 'bio'
