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{bio}[foss/2020b] PartitionFinder v2.1.1 + fix source URL for PyTables v3.5.2 #18429

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Original file line number Diff line number Diff line change
@@ -0,0 +1,48 @@
# Author: Pavel Grochal (INUITS)
# License: GPLv2

easyblock = 'Tarball'

name = 'PartitionFinder'
version = '2.1.1'
versionsuffix = '-Python-%(pyver)s'

homepage = 'https://www.robertlanfear.com/partitionfinder'
description = """PartitionFinder 2 is a Python program for simultaneously
choosing partitioning schemes and models of molecular evolution for phylogenetic
analyses of DNA, protein, and morphological data. You can PartitionFinder 2
before running a phylogenetic analysis, in order to decide how to divide up
your sequence data into separate blocks before analysis, and to simultaneously
perform model selection on each of those blocks."""

toolchain = {'name': 'foss', 'version': '2020b'}

github_account = 'brettc'
source_urls = [GITHUB_SOURCE]
sources = ['v%(version)s.tar.gz']
checksums = ['ccf3718996ee6ca496909b4b97d2b075028e0543eba3bc47a8c14b689c84e061']

dependencies = [
('Python', '2.7.18'),
('SciPy-bundle', '2020.11', versionsuffix),
('scikit-learn', '0.20.4', versionsuffix),
('PyTables', '3.5.2', versionsuffix),
]

postinstallcmds = ["cd %(installdir)s && chmod a+x PartitionFinder*"]
fix_python_shebang_for = ["*.py"]

sanity_check_paths = {
'files': ['%(name)sMorphology.py', '%(name)sProtein.py', '%(name)s.py'],
'dirs': ['partfinder'],
}

sanity_check_commands = [
'%(name)s.py -p %(parallel)s %(installdir)s/examples/nucleotide/test.phy',
'%(name)sProtein.py -p %(parallel)s %(installdir)s/examples/aminoacid/test.phy',
'%(name)sMorphology.py -p %(parallel)s %(installdir)s/examples/morphology/test.phy --raxml',
]

modextrapaths = {'PATH': ''}

moduleclass = 'bio'
Original file line number Diff line number Diff line change
Expand Up @@ -17,7 +17,7 @@ description = """PyTables is a package for managing hierarchical datasets and de
toolchain = {'name': 'foss', 'version': '2020b'}
toolchainopts = {'usempi': True}

source_urls = ['https://github.com/PyTables/PyTables/archive/']
source_urls = ['https://github.com/PyTables/PyTables/archive/refs/tags/']
sources = ['v%(version)s.tar.gz']
patches = ['%(name)s-%(version)s-fix-libs.patch']
checksums = [
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