Error in porting clm5 and creating a new case

[xueyanzhang520@gmail_com]

Hi, everyone! I am new fro porting CLM5 on a Linux platform. When I did a out-of-the-box case using the following command in cime/scripts/../create_newcase --case qian-20190102 --compset I1PtClm45SpGs  --res f19_g16 --mach xyz --run-unsupported --debugThere is an errorRUN: /usr/bin/xmllint --noout --schema /stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/config/xml_schemas/config_compsets.xsd /stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/../cime_config/config_compsets.xml  stat: -11 > /stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/lib/CIME/utils.py(107)expect()-> try:(Pdb) qTraceback (most recent call last):  File "./create_newcase", line 210, in     _main_func(__doc__)  File "./create_newcase", line 205, in _main_func    input_dir=input_dir, driver=driver)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/case/case.py", line 1453, in create    input_dir=input_dir, driver=driver)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/case/case.py", line 787, in configure    compset_name, files)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/case/case.py", line 453, in _set_compset    compsets = Compsets(compsets_filename)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/XML/compsets.py", line 18, in __init__    GenericXML.__init__(self, infile, schema=schema)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/XML/generic_xml.py", line 56, in __init__    self.read(infile, schema)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/XML/generic_xml.py", line 87, in read    self.validate_xml_file(infile, schema)  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/XML/generic_xml.py", line 460, in validate_xml_file    run_cmd_no_fail("{} --noout --schema {} {}".format(xmllint, schema, filename))  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/utils.py", line 453, in run_cmd_no_fail    expect(False, "Command: '{}' failed with error '{}' from dir '{}'".format(cmd, errput.encode('utf-8'), os.getcwd() if from_dir is None else from_dir))  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/utils.py", line 107, in expect    try:  File "/stor9000/apps/users/NWSUAF/2014011989/CLM5/clm5/cime/scripts/Tools/../../scripts/lib/CIME/utils.py", line 107, in expect    try:  File "/stor9000/apps/appsoftware/python2.7.10/lib/python2.7/bdb.py", line 49, in trace_dispatch    return self.dispatch_line(frame)  File "/stor9000/apps/appsoftware/python2.7.10/lib/python2.7/bdb.py", line 68, in dispatch_line    if self.quitting: raise BdbQuitbdb.BdbQuit Now, I have no idea about this error. I have tried xmllint --noout --schema ../../config/xml_schemas/config_machines.xsd config_machines.xml to find the error but got another error:Segmentation fault. I attached my create_newcase.log and config_machines.xml. May you have a look at my problem? Thank you very much!

 

[thiagods@umich_edu]

I experienced similar errors in my early stages of porting CLM5. It is usually caused by some error in the config_* files, like missing or duplicated xml tags. I would recommend starting from scratch and carefully double-checking each change you make in the files.