atropos-1.1.21-intel-2018b-Python-3.6.6.eb

easyblock = 'PythonBundle'

name = 'atropos'
version = '1.1.21'
versionsuffix = '-Python-%(pyver)s'

homepage = 'https://atropos.readthedocs.io'
description = "Atropos is tool for specific, sensitive, and speedy trimming of NGS reads. "

toolchain = {'name': 'intel', 'version': '2018b'}

dependencies = [
    ('Python', '3.6.6'),
    ('Pysam', '0.15.1', versionsuffix),
    ('pytest', '3.8.2', versionsuffix),
    ('NGS-Python', '2.9.3', versionsuffix),  # required for srastream
]

use_pip = True

exts_list = [
    ('python-utils', '2.3.0', {
        'checksums': ['34aaf26b39b0b86628008f2ae0ac001b30e7986a8d303b61e1357dfcdad4f6d3'],
    }),
    ('progressbar2', '3.39.2', {
        'checksums': ['6eb5135b987caca4212d2c7abc2923d4ad5ba18bb34ccbe7044b3628f52efc2c'],
        'modulename': 'progressbar',
    }),
    ('tqdm', '4.31.1', {
        'checksums': ['e22977e3ebe961f72362f6ddfb9197cc531c9737aaf5f607ef09740c849ecd05'],
    }),
    ('bz2file', '0.98', {
        'checksums': ['64c1f811e31556ba9931953c8ec7b397488726c63e09a4c67004f43bdd28da88'],
    }),
    ('screed', '1.0', {
        'checksums': ['5db69f8c413a984ade62eb8344a6eb2be26555d74be86d38512673c1cf621b91'],
    }),
    ('khmer', '2.1.1', {
        'checksums': ['a709606910bb8679bd8525e9d2bf6d1421996272e343b54cc18090feb2fdbe24'],
    }),
    ('MarkupSafe', '1.1.0', {
        'checksums': ['4e97332c9ce444b0c2c38dd22ddc61c743eb208d916e4265a2a3b575bdccb1d3'],
    }),
    ('Jinja2', '2.10', {
        'checksums': ['f84be1bb0040caca4cea721fcbbbbd61f9be9464ca236387158b0feea01914a4'],
    }),
    ('pokrok', '0.2.0', {
        'checksums': ['cfe7956602d8bbc142a07bcb259e0d1d939f96d7b074e00dceea3cb5e39244e8'],
    }),
    ('xphyle', '4.0.5', {
        'checksums': ['b744723a3c88d81318c7291c32682b8715a046f70d0a1db729bda783fd5e08bd'],
    }),
    ('srastream', '0.1.3', {
        'checksums': ['7f2cfd76ae988349ad5407a952cd4c133ae5dff7cf12c76072c53d82b50c2634'],
    }),
    (name, version, {
        'checksums': ['8178af467734b299960edae15d8835a2228ba0cc1b718af436c7d86041fbd4ec'],
    }),
]

sanity_check_paths = {
    'files': ['bin/atropos'],
    'dirs': ['lib/python%(pyshortver)s/site-packages'],
}

sanity_check_commands = ["atropos detect --help"]

sanity_pip_check = True

moduleclass = 'bio'