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- import jpype
- import jpype.imports
- jpype.startJVM(jpype.getDefaultJVMPath(), '-Djava.class.path=%s' % astral)
- jpype.imports.registerDomain('phylonet')
- from phylonet.coalescent import CommandLine
- CommandLine.main(['-i', input_file, '-o', output_file])
- jpype.shutdownJVM()
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