comparison amplicon_analysis_pipeline.py @ 10:b47cf1d6fb47 draft

planemo upload for repository https://github.com/pjbriggs/Amplicon_analysis-galaxy commit f72ff88ee11d09703bf38524dbb8026ee14bc3ef-dirty

9:32a43bc3dd58

    # Executables
    os.mkdir("bin")
    os.environ["PATH"] = os.path.abspath("bin") + \
                         os.pathsep + \
                         os.environ["PATH"])
    print "-- updated PATH: %s" % os.environ["PATH"]
    # Pipeline wants 'vsearch113' but bioconda version is just
    # 'vsearch'
    vsearch = find_executable("vsearch113")
    if vsearch is None:

10:b47cf1d6fb47

    # Executables
    os.mkdir("bin")
    os.environ["PATH"] = os.path.abspath("bin") + \
                         os.pathsep + \
                         os.environ["PATH"]
    print "-- updated PATH: %s" % os.environ["PATH"]
    # Pipeline wants 'vsearch113' but bioconda version is just
    # 'vsearch'
    vsearch = find_executable("vsearch113")
    if vsearch is None: