easyblock = "Tarball"

name = 'orthomcl'
version = '2.0.8'

homepage = 'http://orthomcl.org/'
description = """OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences."""

toolchain = {'name': 'ictce', 'version': '5.3.0'}

sources = ['%(name)sSoftware-v%(version)s.tar.gz']
source_urls = ['http://orthomcl.org/common/downloads/software/v%s/' % '.'.join(version.split('.')[:2])]

patches = ['orthomcl_fix-perl-hashbang.patch']

# a Perl installation providing the DBI module is required
perl = 'Perl'
perlver = '5.16.3'
versionsuffix = '-%s-%s' % (perl, perlver)
dependencies = [
    (perl, perlver),
    ('MCL', '12.135'),
]

sanity_check_paths = {
    'files': ['bin/orthomcl%s' % bin for bin in ['AdjustFasta', 'BlastParser', 'DropSchema', 'DumpPairsFiles',
                                                 'ExtractProteinIdsFromGroupsFile', 'ExtractProteinPairsFromGroupsFile',
                                                 'FilterFasta', 'InstallSchema', 'LoadBlast', 'MclToGroups', 'Pairs',
                                                 'ReduceFasta', 'ReduceGroups', 'RemoveIdenticalGroups', 'Singletons',
                                                 'SortGroupMembersByScore', 'SortGroupsFile']],
    'dirs': ['lib/perl/OrthoMCLEngine'],
}

modextrapaths = {'PERL5LIB': 'lib/perl'}

sanity_check_commands = [('perl', '-e "use OrthoMCLEngine::Main::Base"')]

moduleclass = 'bio'
