コード例 #1
0
def main():
    option_parser, opts, args = parse_command_line_parameters(**script_info)

    qiime_config = load_qiime_config()
    
    rdp_jarpath = get_rdp_jarpath()
    if rdp_jarpath == None:
        rdp_version = "Not installed."
    else:
        rdp_version = split(rdp_jarpath)[1]

    java_version = get_java_version()
    if java_version is None:
        java_version = "Not installed."

    system_info = [
     ("Platform", platform),
     ("Python version",python_version.replace('\n', ' ')),
     ("Python executable",executable)]
    max_len =  max([len(e[0]) for e in system_info])
    print "\nSystem information"
    print  "==================" 
    for v in system_info:
        print "%*s:\t%s" % (max_len,v[0],v[1])

    version_info = [
     ("PyCogent version", pycogent_lib_version),
     ("NumPy version", numpy_lib_version),
     ("matplotlib version", matplotlib_lib_version),
     ("biom-format version", biom_lib_version),
     ("qcli version", qcli_lib_version),
     ("QIIME library version", get_qiime_library_version()),
     ("QIIME script version", __version__),
     ("PyNAST version (if installed)", pynast_lib_version),
     ("RDP Classifier version (if installed)", rdp_version),
     ("Java version (if installed)", java_version),
     ("Emperor version", emperor_lib_version)]

    max_len =  max([len(e[0]) for e in version_info])
    print "\nDependency versions"
    print  "===================" 
    for v in version_info:
        print "%*s:\t%s" % (max_len,v[0],v[1])
    
    print "\nQIIME config values"
    print  "==================="    
    max_len =  max([len(key) for key in qiime_config])
    for key,value in  qiime_config.items():
        print "%*s:\t%s"%(max_len,key,value)

    #run the Testcase.main function to do the tests
    # need to mess with the arg string, otherwise TestCase complains
    if (opts.test):
        print "\n\nrunning checks:\n"
        test_main(argv=["","-v"])
コード例 #2
0
    print "\nSystem information"
    print  "==================" 
    for v in system_info:
        print "%*s:\t%s" % (max_len,v[0],v[1])

    version_info = [
     ("PyCogent version", pycogent_lib_version),
     ("NumPy version", numpy_lib_version),
     ("matplotlib version", matplotlib_lib_version),
     ("QIIME library version", get_qiime_library_version()),
     ("QIIME script version", __version__),
     ("PyNAST version (if installed)", pynast_lib_version),
     ("RDP Classifier version (if installed)", rdp_version)]
    max_len =  max([len(e[0]) for e in version_info])
    print "\nDependency versions"
    print  "===================" 
    for v in version_info:
        print "%*s:\t%s" % (max_len,v[0],v[1])
    
    print "\nQIIME config values"
    print  "==================="    
    max_len =  max([len(key) for key in qiime_config])
    for key,value in  qiime_config.items():
        print "%*s:\t%s"%(max_len,key,value)

    #run the Testcase.main function to do the tests
    # need to mess with the arg string, otherwise TestCase complains
    if (opts.test):
        print "\n\nrunning checks:\n"
        test_main(argv=["","-v"])