prompt: We are currently solving the following issue within our repository. Here is the issue text:
  --- BEGIN ISSUE ---
  CIME mappy scripts_regression_tests in bad shape
  I'm seeing tons of fails:
  
  ```
  FAILED (failures=48, errors=7, skipped=21)
  ```
  
  --- END ISSUE ---
  
  Below are some code segments, each from a relevant file. One or more of these files may contain bugs.
  --- BEGIN FILES ---
  Path: `scripts/lib/CIME/code_checker.py`
  Content:
  ```
  1 """
  2 Libraries for checking python code with pylint
  3 """
  4 
  5 from CIME.XML.standard_module_setup import *
  6 
  7 from CIME.utils import run_cmd, run_cmd_no_fail, expect, get_cime_root, get_src_root, is_python_executable, get_cime_default_driver
  8 
  9 from multiprocessing.dummy import Pool as ThreadPool
  10 #pylint: disable=import-error
  11 from distutils.spawn import find_executable
  12 
  13 logger = logging.getLogger(__name__)
  14 
  15 ###############################################################################
  16 def _run_pylint(on_file, interactive):
  17 ###############################################################################
  18     pylint = find_executable("pylint")
  19 
  20     cmd_options = " --disable=I,C,R,logging-not-lazy,wildcard-import,unused-wildcard-import"
  21     cmd_options += ",fixme,broad-except,bare-except,eval-used,exec-used,global-statement"
  22     cmd_options += ",logging-format-interpolation,no-name-in-module"
  23     cimeroot = get_cime_root()
  24     srcroot = get_src_root()
  25 
  26     if "scripts/Tools" in on_file:
  27         cmd_options +=",relative-import"
  28 
  29     # add init-hook option
  30     cmd_options += " --init-hook='sys.path.extend((\"%s\",\"%s\",\"%s\",\"%s\"))'"%\
  31         (os.path.join(cimeroot,"scripts","lib"),
  32          os.path.join(cimeroot,"scripts","Tools"),
  33          os.path.join(cimeroot,"scripts","fortran_unit_testing","python"),
  34          os.path.join(srcroot,"components","cmeps","cime_config","runseq"))
  35 
  36     cmd = "%s %s %s" % (pylint, cmd_options, on_file)
  37     logger.debug("pylint command is %s"%cmd)
  38     stat, out, err = run_cmd(cmd, verbose=False, from_dir=cimeroot)
  39     if stat != 0:
  40         if interactive:
  41             logger.info("File %s has pylint problems, please fix\n    Use command: %s" % (on_file, cmd))
  42             logger.info(out + "\n" + err)
  43         return (on_file, out + "\n" + err)
  44     else:
  45         if interactive:
  46             logger.info("File %s has no pylint problems" % on_file)
  47         return (on_file, "")
  48 
  49 ###############################################################################
  50 def _matches(file_path, file_ends):
  51 ###############################################################################
  52     for file_end in file_ends:
  53         if file_path.endswith(file_end):
  54             return True
  55 
  56     return False
  57 
  58 ###############################################################################
  59 def _should_pylint_skip(filepath):
  60 ###############################################################################
  61     # TODO - get rid of this
  62     list_of_directories_to_ignore = ("xmlconvertors", "pointclm", "point_clm", "tools", "machines", "apidocs", "doc")
  63     for dir_to_skip in list_of_directories_to_ignore:
  64         if dir_to_skip + "/" in filepath:
  65             return True
  66         if filepath == "scripts/lib/six.py":
  67             return True
  68         # intended to be temporary, file needs update
  69         if filepath.endswith("archive_metadata") or filepath.endswith("pgn.py"):
  70             return True
  71 
  72     return False
  73 
  74 ###############################################################################
  75 def get_all_checkable_files():
  76 ###############################################################################
  77     cimeroot = get_cime_root()
  78     all_git_files = run_cmd_no_fail("git ls-files", from_dir=cimeroot, verbose=False).splitlines()
  79     if get_cime_default_driver() == "nuopc":
  80         srcroot = get_src_root()
  81         nuopc_git_files = []
  82         try:
  83             nuopc_git_files = run_cmd_no_fail("git ls-files", from_dir=os.path.join(srcroot,"components","cmeps"), verbose=False).splitlines()
  84         except:
  85             logger.warning("No nuopc driver found in source")
  86         all_git_files.extend([os.path.join(srcroot,"components","cmeps",_file) for _file in nuopc_git_files])
  87     files_to_test = [item for item in all_git_files
  88                      if ((item.endswith(".py") or is_python_executable(os.path.join(cimeroot, item))) and not _should_pylint_skip(item))]
  89 
  90     return files_to_test
  91 
  92 ###############################################################################
  93 def check_code(files, num_procs=10, interactive=False):
  94 ###############################################################################
  95     """
  96     Check all python files in the given directory
  97 
  98     Returns True if all files had no problems
  99     """
  100     # Get list of files to check, we look to see if user-provided file argument
  101     # is a valid file, if not, we search the repo for a file with similar name.
  102     files_to_check = []
  103     if files:
  104         repo_files = get_all_checkable_files()
  105         for filearg in files:
  106             if os.path.exists(filearg):
  107                 files_to_check.append(os.path.abspath(filearg))
  108             else:
  109                 found = False
  110                 for repo_file in repo_files:
  111                     if repo_file.endswith(filearg):
  112                         found = True
  113                         files_to_check.append(repo_file) # could have multiple matches
  114 
  115                 if not found:
  116                     logger.warning("Could not find file matching argument '%s'" % filearg)
  117     else:
  118         # Check every python file
  119         files_to_check = get_all_checkable_files()
  120 
  121     if "scripts/lib/six.py" in files_to_check:
  122         files_to_check.remove("scripts/lib/six.py")
  123         logger.info("Not checking contributed file six.py")
  124 
  125     expect(len(files_to_check) > 0, "No matching files found")
  126 
  127     # No point in using more threads than files
  128     if len(files_to_check) < num_procs:
  129         num_procs = len(files_to_check)
  130 
  131     pool = ThreadPool(num_procs)
  132     results = pool.map(lambda x : _run_pylint(x, interactive), files_to_check)
  133     pool.close()
  134     pool.join()
  135     return dict(results)
  136
  ```
  --- END FILES ---
  
  Please first localize the bug based on the issue statement, and then generate a patch according to the `git diff` format fenced by three backticks.
  
  Here is an example:
  
  ```diff
  diff --git a/examples/server_async.py b/examples/server_async.py
  --- a/examples/server_async.py
  +++ b/examples/server_async.py
  @@ -313,4 +313,4 @@
   
   
   if __name__ == "__main__":
  -    asyncio.run(run_async_server("."), debug=True)
  +    asyncio.run(run_async_server(), debug=True)
  diff --git a/examples/server_sync.py b/examples/server_sync.py
  --- a/examples/server_sync.py
  +++ b/examples/server_sync.py
  @@ -313,5 +313,5 @@
   
   
   if __name__ == "__main__":
  -    server = run_sync_server(".")
  +    server = run_sync_server()
       server.shutdown()
  
  ```
  
golden_diff: diff --git a/scripts/lib/CIME/code_checker.py b/scripts/lib/CIME/code_checker.py
  --- a/scripts/lib/CIME/code_checker.py
  +++ b/scripts/lib/CIME/code_checker.py
  @@ -19,7 +19,7 @@
   
       cmd_options = " --disable=I,C,R,logging-not-lazy,wildcard-import,unused-wildcard-import"
       cmd_options += ",fixme,broad-except,bare-except,eval-used,exec-used,global-statement"
  -    cmd_options += ",logging-format-interpolation,no-name-in-module"
  +    cmd_options += ",logging-format-interpolation,no-name-in-module,arguments-renamed"
       cimeroot = get_cime_root()
       srcroot = get_src_root()
  
verification_info: {"golden_diff": "diff --git a/scripts/lib/CIME/code_checker.py b/scripts/lib/CIME/code_checker.py\n--- a/scripts/lib/CIME/code_checker.py\n+++ b/scripts/lib/CIME/code_checker.py\n@@ -19,7 +19,7 @@\n \n     cmd_options = \" --disable=I,C,R,logging-not-lazy,wildcard-import,unused-wildcard-import\"\n     cmd_options += \",fixme,broad-except,bare-except,eval-used,exec-used,global-statement\"\n-    cmd_options += \",logging-format-interpolation,no-name-in-module\"\n+    cmd_options += \",logging-format-interpolation,no-name-in-module,arguments-renamed\"\n     cimeroot = get_cime_root()\n     srcroot = get_src_root()\n", "issue": "CIME mappy scripts_regression_tests in bad shape\nI'm seeing tons of fails:\r\n\r\n```\r\nFAILED (failures=48, errors=7, skipped=21)\r\n```\n", "before_files": [{"content": "\"\"\"\nLibraries for checking python code with pylint\n\"\"\"\n\nfrom CIME.XML.standard_module_setup import *\n\nfrom CIME.utils import run_cmd, run_cmd_no_fail, expect, get_cime_root, get_src_root, is_python_executable, get_cime_default_driver\n\nfrom multiprocessing.dummy import Pool as ThreadPool\n#pylint: disable=import-error\nfrom distutils.spawn import find_executable\n\nlogger = logging.getLogger(__name__)\n\n###############################################################################\ndef _run_pylint(on_file, interactive):\n###############################################################################\n    pylint = find_executable(\"pylint\")\n\n    cmd_options = \" --disable=I,C,R,logging-not-lazy,wildcard-import,unused-wildcard-import\"\n    cmd_options += \",fixme,broad-except,bare-except,eval-used,exec-used,global-statement\"\n    cmd_options += \",logging-format-interpolation,no-name-in-module\"\n    cimeroot = get_cime_root()\n    srcroot = get_src_root()\n\n    if \"scripts/Tools\" in on_file:\n        cmd_options +=\",relative-import\"\n\n    # add init-hook option\n    cmd_options += \" --init-hook='sys.path.extend((\\\"%s\\\",\\\"%s\\\",\\\"%s\\\",\\\"%s\\\"))'\"%\\\n        (os.path.join(cimeroot,\"scripts\",\"lib\"),\n         os.path.join(cimeroot,\"scripts\",\"Tools\"),\n         os.path.join(cimeroot,\"scripts\",\"fortran_unit_testing\",\"python\"),\n         os.path.join(srcroot,\"components\",\"cmeps\",\"cime_config\",\"runseq\"))\n\n    cmd = \"%s %s %s\" % (pylint, cmd_options, on_file)\n    logger.debug(\"pylint command is %s\"%cmd)\n    stat, out, err = run_cmd(cmd, verbose=False, from_dir=cimeroot)\n    if stat != 0:\n        if interactive:\n            logger.info(\"File %s has pylint problems, please fix\\n    Use command: %s\" % (on_file, cmd))\n            logger.info(out + \"\\n\" + err)\n        return (on_file, out + \"\\n\" + err)\n    else:\n        if interactive:\n            logger.info(\"File %s has no pylint problems\" % on_file)\n        return (on_file, \"\")\n\n###############################################################################\ndef _matches(file_path, file_ends):\n###############################################################################\n    for file_end in file_ends:\n        if file_path.endswith(file_end):\n            return True\n\n    return False\n\n###############################################################################\ndef _should_pylint_skip(filepath):\n###############################################################################\n    # TODO - get rid of this\n    list_of_directories_to_ignore = (\"xmlconvertors\", \"pointclm\", \"point_clm\", \"tools\", \"machines\", \"apidocs\", \"doc\")\n    for dir_to_skip in list_of_directories_to_ignore:\n        if dir_to_skip + \"/\" in filepath:\n            return True\n        if filepath == \"scripts/lib/six.py\":\n            return True\n        # intended to be temporary, file needs update\n        if filepath.endswith(\"archive_metadata\") or filepath.endswith(\"pgn.py\"):\n            return True\n\n    return False\n\n###############################################################################\ndef get_all_checkable_files():\n###############################################################################\n    cimeroot = get_cime_root()\n    all_git_files = run_cmd_no_fail(\"git ls-files\", from_dir=cimeroot, verbose=False).splitlines()\n    if get_cime_default_driver() == \"nuopc\":\n        srcroot = get_src_root()\n        nuopc_git_files = []\n        try:\n            nuopc_git_files = run_cmd_no_fail(\"git ls-files\", from_dir=os.path.join(srcroot,\"components\",\"cmeps\"), verbose=False).splitlines()\n        except:\n            logger.warning(\"No nuopc driver found in source\")\n        all_git_files.extend([os.path.join(srcroot,\"components\",\"cmeps\",_file) for _file in nuopc_git_files])\n    files_to_test = [item for item in all_git_files\n                     if ((item.endswith(\".py\") or is_python_executable(os.path.join(cimeroot, item))) and not _should_pylint_skip(item))]\n\n    return files_to_test\n\n###############################################################################\ndef check_code(files, num_procs=10, interactive=False):\n###############################################################################\n    \"\"\"\n    Check all python files in the given directory\n\n    Returns True if all files had no problems\n    \"\"\"\n    # Get list of files to check, we look to see if user-provided file argument\n    # is a valid file, if not, we search the repo for a file with similar name.\n    files_to_check = []\n    if files:\n        repo_files = get_all_checkable_files()\n        for filearg in files:\n            if os.path.exists(filearg):\n                files_to_check.append(os.path.abspath(filearg))\n            else:\n                found = False\n                for repo_file in repo_files:\n                    if repo_file.endswith(filearg):\n                        found = True\n                        files_to_check.append(repo_file) # could have multiple matches\n\n                if not found:\n                    logger.warning(\"Could not find file matching argument '%s'\" % filearg)\n    else:\n        # Check every python file\n        files_to_check = get_all_checkable_files()\n\n    if \"scripts/lib/six.py\" in files_to_check:\n        files_to_check.remove(\"scripts/lib/six.py\")\n        logger.info(\"Not checking contributed file six.py\")\n\n    expect(len(files_to_check) > 0, \"No matching files found\")\n\n    # No point in using more threads than files\n    if len(files_to_check) < num_procs:\n        num_procs = len(files_to_check)\n\n    pool = ThreadPool(num_procs)\n    results = pool.map(lambda x : _run_pylint(x, interactive), files_to_check)\n    pool.close()\n    pool.join()\n    return dict(results)\n", "path": "scripts/lib/CIME/code_checker.py"}], "after_files": [{"content": "\"\"\"\nLibraries for checking python code with pylint\n\"\"\"\n\nfrom CIME.XML.standard_module_setup import *\n\nfrom CIME.utils import run_cmd, run_cmd_no_fail, expect, get_cime_root, get_src_root, is_python_executable, get_cime_default_driver\n\nfrom multiprocessing.dummy import Pool as ThreadPool\n#pylint: disable=import-error\nfrom distutils.spawn import find_executable\n\nlogger = logging.getLogger(__name__)\n\n###############################################################################\ndef _run_pylint(on_file, interactive):\n###############################################################################\n    pylint = find_executable(\"pylint\")\n\n    cmd_options = \" --disable=I,C,R,logging-not-lazy,wildcard-import,unused-wildcard-import\"\n    cmd_options += \",fixme,broad-except,bare-except,eval-used,exec-used,global-statement\"\n    cmd_options += \",logging-format-interpolation,no-name-in-module,arguments-renamed\"\n    cimeroot = get_cime_root()\n    srcroot = get_src_root()\n\n    if \"scripts/Tools\" in on_file:\n        cmd_options +=\",relative-import\"\n\n    # add init-hook option\n    cmd_options += \" --init-hook='sys.path.extend((\\\"%s\\\",\\\"%s\\\",\\\"%s\\\",\\\"%s\\\"))'\"%\\\n        (os.path.join(cimeroot,\"scripts\",\"lib\"),\n         os.path.join(cimeroot,\"scripts\",\"Tools\"),\n         os.path.join(cimeroot,\"scripts\",\"fortran_unit_testing\",\"python\"),\n         os.path.join(srcroot,\"components\",\"cmeps\",\"cime_config\",\"runseq\"))\n\n    cmd = \"%s %s %s\" % (pylint, cmd_options, on_file)\n    logger.debug(\"pylint command is %s\"%cmd)\n    stat, out, err = run_cmd(cmd, verbose=False, from_dir=cimeroot)\n    if stat != 0:\n        if interactive:\n            logger.info(\"File %s has pylint problems, please fix\\n    Use command: %s\" % (on_file, cmd))\n            logger.info(out + \"\\n\" + err)\n        return (on_file, out + \"\\n\" + err)\n    else:\n        if interactive:\n            logger.info(\"File %s has no pylint problems\" % on_file)\n        return (on_file, \"\")\n\n###############################################################################\ndef _matches(file_path, file_ends):\n###############################################################################\n    for file_end in file_ends:\n        if file_path.endswith(file_end):\n            return True\n\n    return False\n\n###############################################################################\ndef _should_pylint_skip(filepath):\n###############################################################################\n    # TODO - get rid of this\n    list_of_directories_to_ignore = (\"xmlconvertors\", \"pointclm\", \"point_clm\", \"tools\", \"machines\", \"apidocs\", \"doc\")\n    for dir_to_skip in list_of_directories_to_ignore:\n        if dir_to_skip + \"/\" in filepath:\n            return True\n        if filepath == \"scripts/lib/six.py\":\n            return True\n        # intended to be temporary, file needs update\n        if filepath.endswith(\"archive_metadata\") or filepath.endswith(\"pgn.py\"):\n            return True\n\n    return False\n\n###############################################################################\ndef get_all_checkable_files():\n###############################################################################\n    cimeroot = get_cime_root()\n    all_git_files = run_cmd_no_fail(\"git ls-files\", from_dir=cimeroot, verbose=False).splitlines()\n    if get_cime_default_driver() == \"nuopc\":\n        srcroot = get_src_root()\n        nuopc_git_files = []\n        try:\n            nuopc_git_files = run_cmd_no_fail(\"git ls-files\", from_dir=os.path.join(srcroot,\"components\",\"cmeps\"), verbose=False).splitlines()\n        except:\n            logger.warning(\"No nuopc driver found in source\")\n        all_git_files.extend([os.path.join(\"components\",\"cmeps\",_file) for _file in nuopc_git_files])\n    files_to_test = [item for item in all_git_files\n                     if ((item.endswith(\".py\") or is_python_executable(os.path.join(cimeroot, item))) and not _should_pylint_skip(item))]\n\n    return files_to_test\n\n###############################################################################\ndef check_code(files, num_procs=10, interactive=False):\n###############################################################################\n    \"\"\"\n    Check all python files in the given directory\n\n    Returns True if all files had no problems\n    \"\"\"\n    # Get list of files to check, we look to see if user-provided file argument\n    # is a valid file, if not, we search the repo for a file with similar name.\n    files_to_check = []\n    if files:\n        repo_files = get_all_checkable_files()\n        for filearg in files:\n            if os.path.exists(filearg):\n                files_to_check.append(os.path.abspath(filearg))\n            else:\n                found = False\n                for repo_file in repo_files:\n                    if repo_file.endswith(filearg):\n                        found = True\n                        files_to_check.append(repo_file) # could have multiple matches\n\n                if not found:\n                    logger.warning(\"Could not find file matching argument '%s'\" % filearg)\n    else:\n        # Check every python file\n        files_to_check = get_all_checkable_files()\n\n    if \"scripts/lib/six.py\" in files_to_check:\n        files_to_check.remove(\"scripts/lib/six.py\")\n        logger.info(\"Not checking contributed file six.py\")\n\n    expect(len(files_to_check) > 0, \"No matching files found\")\n\n    # No point in using more threads than files\n    if len(files_to_check) < num_procs:\n        num_procs = len(files_to_check)\n\n    pool = ThreadPool(num_procs)\n    results = pool.map(lambda x : _run_pylint(x, interactive), files_to_check)\n    pool.close()\n    pool.join()\n    return dict(results)\n", "path": "scripts/lib/CIME/code_checker.py"}]}