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"])
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"])
