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44 lines
1.3 KiB
Plaintext
44 lines
1.3 KiB
Plaintext
# IT4Innovations 2019
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easyblock = 'Tarball'
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name = 'GATK'
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version = '4.1.4.0'
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versionsuffix = '-Java-%(javaver)s'
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homepage = 'http://www.broadinstitute.org/gatk/'
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description = """The Genome Analysis Toolkit or GATK is a software package developed at the Broad Institute
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to analyse next-generation resequencing data. The toolkit offers a wide variety of tools,
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with a primary focus on variant discovery and genotyping as well as strong emphasis on
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data quality assurance. Its robust architecture, powerful processing engine and
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high-performance computing features make it capable of taking on projects of any size."""
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toolchain = {'name': 'system', 'version': ''}
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# download manually from http://www.broadinstitute.org/gatk/download
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source_urls = [
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' https://github.com/broadinstitute/gatk/releases/download/%(version)s/']
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sources = ['gatk-%(version)s.zip']
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dependencies = [('Java', '1.8.0_202')]
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postinstallcmds = [
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'mkdir %(installdir)s/bin',
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'mv %(installdir)s/gatk %(installdir)s/bin',
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]
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modextravars = {
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'export GATK_LOCAL_JAR': '%(installdir)s/gatk-package-%(version)s-local.jar'
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}
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sanity_check_paths = {
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'files': [
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'gatk-package-%(version)s-local.jar',
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'gatk-package-%(version)s-spark.jar'],
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'dirs': ['bin'],
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}
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moduleclass = 'bio'
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