ClusterBase Class Reference

Inheritance diagram for ClusterBase:

Public Member Functions
	__init__ (self)
	The default constructor.
str	createDoneFileName (self, Script job)
	Generate the file name used for the done output.
	prepareSubmission (self, Script job, options, tag)
	Setup output folders and create the wrapping shell script.
	checkDoneFile (self, job)
	Checks whether the '.done'-file has been created for a job.
	terminate (self, Script job)
	Terminate running job.
	adjust_path (self, path)
	This method can be used if path names are different on submission and execution hosts.

Public Attributes
	path = os.getcwd()
	The default constructor.
	logger = logging.getLogger("validate_basf2")
	Contains a reference to the logger-object from validate_basf2 Set up the logging functionality for the 'cluster execution'-Class, so we can log to validate_basf2.py's log what is going on in .execute and .is_finished.
	tools = self.adjust_path(os.environ["BELLE2_TOOLS"])
	Path to the basf2 tools and central/local release.
str	b2setup = "b2setup"
	The command for b2setup (and b2code-option)
	clusterlog = open(clusterlog_dir + "clusterlog.log", "w+")
	The file object to which all cluster messages will be written.

Detailed Description

Base class which provides basic functionality to wrap basf2 into a shell
script setting up the environment and checking for completion of script

Definition at line 21 of file clustercontrolbase.py.

Constructor & Destructor Documentation

__init__()

__init__

(

self

)

The default constructor.

Definition at line 27 of file clustercontrolbase.py.

    def __init__(self):
        """!
        The default constructor.
        """
        
        self.path = os.getcwd()
 
        
        self.logger = logging.getLogger("validate_basf2")
 
        # We need to set up the same environment on the cluster like on the
        # local machine. The information can be extracted from $BELLE2_TOOLS,
        # $BELLE2_RELEASE_DIR and $BELLE2_LOCAL_DIR
 
        
        self.tools = self.adjust_path(os.environ["BELLE2_TOOLS"])
        belle2_release_dir = os.environ.get("BELLE2_RELEASE_DIR", None)
        belle2_local_dir = os.environ.get("BELLE2_LOCAL_DIR", None)
 
        
        self.b2setup = "b2setup"
        if belle2_release_dir is not None:
            self.b2setup += " " + belle2_release_dir.split("/")[-1]
        if belle2_local_dir is not None:
            self.b2setup = (
                "MY_BELLE2_DIR="
                + self.adjust_path(belle2_local_dir)
                + " "
                + self.b2setup
            )
        if os.environ.get("BELLE2_OPTION") != "debug":
            self.b2setup += "; b2code-option " + os.environ.get("BELLE2_OPTION")
 
        # Write to log which revision we are using
        self.logger.debug(f"Setting up the following release: {self.b2setup}")
 
        # Define the folder in which the log of the cluster messages will be
        # stored (same folder like the log for validate_basf2.py)
        clusterlog_dir = "./html/logs/__general__/"
        if not os.path.exists(clusterlog_dir):
            os.makedirs(clusterlog_dir)
 
        
        self.clusterlog = open(clusterlog_dir + "clusterlog.log", "w+")
 

Member Function Documentation

adjust_path()

adjust_path	(		self,
			path )

This method can be used if path names are different on submission and execution hosts.

Parameters

path	The past that needs to be adjusted

Returns

: The adjusted path

Reimplemented in Cluster.

Definition at line 177 of file clustercontrolbase.py.

    def adjust_path(self, path):
        """!
        This method can be used if path names are different on submission
        and execution hosts.
        @param path: The past that needs to be adjusted
        @return: The adjusted path
        """

checkDoneFile()

checkDoneFile	(		self,
			job )

Checks whether the '.done'-file has been created for a job.

If so, it returns True, else it returns False in the first part of the tuple. Also deletes the .done-File it if exists. The second entry in the tuple will be the exit code read from the done file

Definition at line 139 of file clustercontrolbase.py.

    def checkDoneFile(self, job):
        """!
        Checks whether the '.done'-file has been created for a job. If so, it
        returns True, else it returns False in the first part of the tuple.
        Also deletes the .done-File it if exists.
        The second entry in the tuple will be the exit code read from the done file
        """
 
        # If there is a file indicating the job is done, that is its name:
        donefile_path = self.createDoneFileName(job)
 
        donefile_exists = False
        # Check if such a file exists. If so, this means that the job has
        # finished.
        if os.path.isfile(donefile_path):
 
            # Read the returncode/exit_status for the job from the *.done-file
            with open(donefile_path) as f:
                try:
                    returncode = int(f.read().strip())
                except ValueError:
                    returncode = -654
 
            print(f"donefile found with return code {returncode}")
            donefile_exists = True
            os.remove(donefile_path)
        else:
            print("no donefile found")
            returncode = -555
 
        return [donefile_exists, returncode]
 

createDoneFileName()

str createDoneFileName	(		self,
		Script	job )

Generate the file name used for the done output.

Definition at line 76 of file clustercontrolbase.py.

    def createDoneFileName(self, job: Script) -> str:
        """!
        Generate the file name used for the done output
        """
        return f"{self.path}/script_{job.name}.done"
 

prepareSubmission()

prepareSubmission	(		self,
		Script	job,
			options,
			tag )

Setup output folders and create the wrapping shell script.

Will return the full file name of the generated wrapper script.

Definition at line 82 of file clustercontrolbase.py.

    def prepareSubmission(self, job: Script, options, tag):
        """!
        Setup output folders and create the wrapping shell script. Will return
        the full file name of the generated wrapper script.
        """
 
        # Define the folder in which the results (= the ROOT files) should be
        # created. This is where the files containing plots will end up. By
        # convention, data files will be stored in the parent dir.
        # Then make sure the folder exists (create if it does not exist) and
        # change to cwd to this folder.
        output_dir = os.path.abspath(f"./results/{tag}/{job.package}")
        if not os.path.exists(output_dir):
            os.makedirs(output_dir)
 
        # Path where log file is supposed to be created
        # log_file = output_dir + '/' + os.path.basename(job.path) + '.log'
 
        # Remove any left over done files
        donefile_path = self.createDoneFileName(job)
        if os.path.isfile(donefile_path):
            os.remove(donefile_path)
 
        # Now we need to distinguish between .py and .C files:
        extension = os.path.splitext(job.path)[1]
        if extension == ".C":
            # .c files are executed with root
            command = "root -b -q " + job.path
        else:
            # .py files are executed with basf2
            # 'options' contains an option-string for basf2, e.g. '-n 100'
            command = f"basf2 {job.path} {options}"
 
        # Create a helpfile-shellscript, which contains all the commands that
        # need to be executed by the cluster.
        # First, set up the basf2 tools and perform b2setup with the correct
        # revision. The execute the command (i.e. run basf2 or ROOT on a
        # steering file). Write the return code of that into a *.done file.
        # Delete the helpfile-shellscript.
        tmp_name = self.path + "/" + "script_" + job.name + ".sh"
        with open(tmp_name, "w+") as tmp_file:
            tmp_file.write(
                "#!/bin/bash \n\n"
                + "BELLE2_NO_TOOLS_CHECK=1 \n"
                + f"source {self.tools}/b2setup \n"
                + f"cd {self.adjust_path(output_dir)} \n"
                + f"{command} \n"
                + f"echo $? > {self.path}/script_{job.name}.done \n"
                + f"rm {tmp_name} \n"
            )
 
        # Make the helpfile-shellscript executable
        st = os.stat(tmp_name)
        os.chmod(tmp_name, st.st_mode | stat.S_IEXEC)
 
        return tmp_name
 

terminate()

terminate	(		self,
		Script	job )

Terminate running job.

Definition at line 171 of file clustercontrolbase.py.

    def terminate(self, job: Script):
        """! Terminate running job.
        """
        self.logger.error("Script termination not supported.")
 

Member Data Documentation

b2setup

str b2setup = "b2setup"

The command for b2setup (and b2code-option)

Definition at line 51 of file clustercontrolbase.py.

clusterlog

clusterlog = open(clusterlog_dir + "clusterlog.log", "w+")

The file object to which all cluster messages will be written.

Definition at line 74 of file clustercontrolbase.py.

logger

logger = logging.getLogger("validate_basf2")

Contains a reference to the logger-object from validate_basf2 Set up the logging functionality for the 'cluster execution'-Class, so we can log to validate_basf2.py's log what is going on in .execute and .is_finished.

Definition at line 39 of file clustercontrolbase.py.

path

path = os.getcwd()

The default constructor.

The path, where the help files are being created Maybe there should be a special subfolder for them?

Definition at line 33 of file clustercontrolbase.py.

tools

tools = self.adjust_path(os.environ["BELLE2_TOOLS"])

Path to the basf2 tools and central/local release.

Definition at line 46 of file clustercontrolbase.py.

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The documentation for this class was generated from the following file:

• validation/scripts/clustercontrolbase.py