python.SgDumpLib Namespace Reference

Functions
	_make_jobo (job)
	_gen_jobo (dct)
	_run_jobo (job, msg, options)
	run_sg_dump (files, output, nevts=-1, skip=0, dump_jobo=False, pyalg_cls='PyDumper.PyComps:PySgDumper', include=' *', exclude='', do_clean_up=False, athena_opts=None, conditions_tag=None, full_log=False, msg=None)

Variables
str	__doc__
str	__author__ = "Sebastien Binet <binet@cern.ch>"
list	__all__

Function Documentation

_gen_jobo()

python.SgDumpLib._gen_jobo ( dct )

protected

Definition at line 29 of file SgDumpLib.py.

def _gen_jobo(dct):
    import textwrap
    job = textwrap.dedent("""\
    #!/usr/bin/env athena.py
    # automatically generated joboptions file
 
    from AthenaConfiguration.AllConfigFlags import initConfigFlags
    from AthenaConfiguration.Enums import Format
    from PyDumper.DumpConfig import DumpCfg
 
    flags = initConfigFlags()
    flags.GeoModel.Align.Dynamic = False
    flags.Input.Files = %(input-files)s
    flags.Exec.MaxEvents = %(evts)s
    flags.Exec.SkipEvents = %(skip)s
 
    if flags.Input.Format is Format.BS:
        # BS files don't contain the conditions/geometry tags.
        # Try to give some reasonable defaults here, depending on the run.
        # These may still be overridden from the command line.
        if flags.Input.DataYear < 2000:
            pass
        elif flags.Input.DataYear < 2015:
            flags.GeoModel.AtlasVersion = 'ATLAS-R1-2012-03-00-00'
            flags.IOVDb.GlobalTag = 'COMCOND-BLKPA-RUN1-09'
            flags.Trigger.doxAODConversion = False
        elif flags.Input.DataYear < 2020:
            flags.GeoModel.AtlasVersion = 'ATLAS-R2-2016-01-00-01'
            flags.IOVDb.GlobalTag = 'CONDBR2-BLKPA-RUN2-09'
        else:
            flags.GeoModel.AtlasVersion = 'ATLAS-R3S-2021-03-02-00'
            flags.IOVDb.GlobalTag = 'CONDBR2-BLKPA-2023-03'
    else:
        if flags.GeoModel.AtlasVersion:
            if flags.GeoModel.AtlasVersion.find ('ATLAS-GEO-1') >= 0:
                flags.GeoModel.AtlasVersion = 'ATLAS-R1-2012-03-00-00'
 
    flags.fillFromArgs()
    flags.lock()
 
    from AthenaConfiguration.MainServicesConfig import MainServicesCfg
    cfg = MainServicesCfg(flags)
 
    if flags.Input.Format is Format.BS:
        from PyDumper.BSReadConfig import BSReadCfg
        cfg.merge (BSReadCfg (flags))
    else:
        from AthenaPoolCnvSvc.PoolReadConfig import PoolReadCfg
        cfg.merge(PoolReadCfg(flags))
 
    cfg.merge (DumpCfg (flags,
                        ofile='%(ofile-name)s',
                        items='%(include)s',
                        exclude='%(exclude)s'))
 
    sc = cfg.run (%(evts)s)
    import sys
    sys.exit (sc.isFailure())
    """) % dct
 
    return job
 

_make_jobo()

python.SgDumpLib._make_jobo ( job )

protected

Definition at line 20 of file SgDumpLib.py.

def _make_jobo(job):
    import tempfile
    jobo = tempfile.NamedTemporaryFile(suffix='-jobo.py', mode='w+')
    import textwrap
    job = textwrap.dedent (job)
    jobo.writelines([l+os.linesep for l in job.splitlines()])
    jobo.flush()
    return jobo
 

_run_jobo()

python.SgDumpLib._run_jobo ( job, msg, options )

protected

Definition at line 91 of file SgDumpLib.py.

def _run_jobo(job, msg, options):
    import os,atexit,tempfile,shutil
    # capture current directory's content
    keep_files = [os.path.abspath(item)
                  for item in os.listdir(os.getcwd())]
    keep_files.append (os.path.abspath(options.oname))
    keep_files.append (os.path.abspath("%s.log"%options.oname))
    
    def _cleanup(keep_files):
        errors = []
        for item in os.listdir(os.getcwd()):
            item = os.path.abspath(item)
            if os.path.basename(item).startswith(('.__afs',
                                                  '.__nfs')):
                # don't care about freakingly sticky metadata files
                continue
            
            if item in keep_files:
                continue
            try:
                if   os.path.isfile (item): os.remove (item)
                elif os.path.islink (item): os.unlink (item)
                elif os.path.isdir  (item): shutil.rmtree (item)
                else:
                    msg.warning ("don't know what kind of stuff this is: %s",
                                 item)
            except Exception as err:
                errors.append ("%s"%err)
                pass
        if len(errors)>0:
            msg.error ("problem during workdir clean-up")
            map (msg.error, errors)
        else:
            msg.debug ("workdir clean-up [ok]")
        return
 
    if options.do_clean_up:
        atexit.register (_cleanup, keep_files)
    
    import subprocess
    sc,out = subprocess.getstatusoutput ('which athena.py')
    if sc != 0:
        msg.error("could not locate 'athena.py':\n%s", out)
        return sc, out
    app = out
    jobo = _make_jobo(job)
 
    sc,out = subprocess.getstatusoutput ('which sh')
    if sc != 0:
        msg.error("could not locate 'sh':\n%s",out)
        return sc, out
    sh = out
 
    logfile = tempfile.NamedTemporaryFile(prefix='sg_dumper_job_',
                                          suffix='.logfile.txt',
                                          dir=os.getcwd(),
                                          mode = 'w+')
 
    # do not require $HOME to be available for ROOT
    # see bug #82096
    # https://savannah.cern.ch/bugs/index.php?82096
    env = dict(os.environ)
    env['ROOTENV_NO_HOME'] = os.getenv('ROOTENV_NO_HOME', '1')
    
    out = []
    athena_opts = []
    if options.athena_opts:
        import shlex
        athena_opts = shlex.split(options.athena_opts)
    cmd = [sh, app,] + athena_opts + ['--CA'] + [jobo.name,]
    import subprocess as sub
    app_handle = sub.Popen (args=cmd,
                            stdout=logfile,
                            stderr=logfile,
                            env=env)
    pos = 0
    import re
    if options.full_log:
        pat = re.compile ('.*')
    else:
        pat = re.compile (r'^Py:pyalg .*')
    evt_pat = re.compile (
        r'^Py:pyalg .*? ==> processing event \[(?P<evtnbr>\d*?)\].*'
        )
    def _monitor(pos):
        logfile.flush()
        _watcher = open (logfile.name, 'r'); _watcher.seek (0, 2) # end of file
        end = _watcher.tell();               _watcher.seek (pos)
        mon = [l for l in _watcher
               if pat.match(l)]
        _watcher.seek (end)
        pos = _watcher.tell()
 
        for l in mon:
            if l.count ('==> initialize...'):
                msg.info ('athena initialized')
            if evt_pat.match(l):
                ievt = evt_pat.match(l).group('evtnbr')
                out.append(ievt)
                msg.info ('processed event [%s]', ievt)
            if l.count ('==> finalize...'):
                msg.info ('athena finalized')
                
        return pos
 
    import time
    while app_handle.poll() is None:
        pos = _monitor(pos)
        time.sleep (5)
        pass
    _monitor(pos)
    
    jobo.close()
    sc = app_handle.returncode
    if sc != 0:
        logfile.seek(0)
        msg.error ('='*80)
        from io import StringIO
        err = StringIO()
        for l in logfile:
            print (l, end='')
            print (l, end='', file=err)
        msg.error ('='*80)
        msg.error ('problem running jobo')
        return sc, err.getvalue()
 
    logfile.seek (0)
    from io import StringIO
    out = StringIO()
    for l in logfile:
        if pat.match(l):
            print (l, end='', file=out)
    return sc, out.getvalue()
 

run_sg_dump()

python.SgDumpLib.run_sg_dump	(		files,
			output,
			nevts = -1,
			skip = 0,
			dump_jobo = False,
			pyalg_cls = 'PyDumper.PyComps:PySgDumper',
			include = '*',
			exclude = '',
			do_clean_up = False,
			athena_opts = None,
			conditions_tag = None,
			full_log = False,
			msg = None )

API for the sg-dump script.
 `files` a list of input filenames to be dumped by SgDump
 `output` the name of the output (ASCII) file
 `nevts`  the number of events to dump (default: -1 ie all)
 `skip`   the number of events to skip at the start (default: 0)
 `dump_jobo` switch to store or not the automatically generated jobo (put
             the name of the jobo output name in there if you want to keep
             it)
 `pyalg_cls` the fully qualified name of the PyAthena.Alg class to process the file(s) content (PySgDumper or DataProxyLoader)
 `include`: comma-separates list of type#key container names to dump.
 `exclude`: comma-separated list of glob patterns for keys/types to ignore.
 `do_clean_up` flag to enable the attempt at removing all the files sg-dump
               produces during the course of its execution
 `athena_opts` a space-separated list of athena command-line options (e.g '--perfmon --stdcmalloc --nprocs=-1')
 `conditions_tag` force a specific global conditions tag
 `msg`    a logging.Logger instance

 returns the exit code of the sub-athena process

Definition at line 225 of file SgDumpLib.py.

                msg=None):
    """API for the sg-dump script.
     `files` a list of input filenames to be dumped by SgDump
     `output` the name of the output (ASCII) file
     `nevts`  the number of events to dump (default: -1 ie all)
     `skip`   the number of events to skip at the start (default: 0)
     `dump_jobo` switch to store or not the automatically generated jobo (put
                 the name of the jobo output name in there if you want to keep
                 it)
     `pyalg_cls` the fully qualified name of the PyAthena.Alg class to process the file(s) content (PySgDumper or DataProxyLoader)
     `include`: comma-separates list of type#key container names to dump.
     `exclude`: comma-separated list of glob patterns for keys/types to ignore.
     `do_clean_up` flag to enable the attempt at removing all the files sg-dump
                   produces during the course of its execution
     `athena_opts` a space-separated list of athena command-line options (e.g '--perfmon --stdcmalloc --nprocs=-1')
     `conditions_tag` force a specific global conditions tag
     `msg`    a logging.Logger instance
 
     returns the exit code of the sub-athena process
    """
 
    if msg is None:
        import PyUtils.Logging as L
        msg = L.logging.getLogger('sg-dumper')
        msg.setLevel(L.logging.INFO)
 
    if isinstance(files, str):
        files = files.split()
        
    if not isinstance(files, (list,tuple)):
        err = "'files' needs to be a list (or tuple) of file names"
        msg.error(err)
        raise TypeError(err)
 
    if not isinstance(output, str):
        err = "'output' needs to be a filename"
        msg.error(err)
        raise TypeError(err)
 
    _allowed_values = ('PyDumper.PyComps:PySgDumper',
                       'PyDumper.PyComps:DataProxyLoader')
    if not (pyalg_cls in _allowed_values):
        err = "'pyalg_cls' allowed values are: %s. got: [%s]" % (
            _allowed_values,
            pyalg_cls)
        msg.error(err)
        raise ValueError(err)
    pyalg_pkg,pyalg_cls = pyalg_cls.split(':')
 
    conditions_tag_frag = ''
    if conditions_tag:
        conditions_tag_frag = "conddb.setGlobalTag('%s')" % conditions_tag
    jobo = _gen_jobo({
        'ofile-name' : output,
        'input-files': files,
        'evts' :       nevts,
        'skip' :       skip,
        'include' :    include,
        'exclude' :    exclude,
        'pyalg_pkg':   pyalg_pkg,
        'pyalg_cls':   pyalg_cls,
        'conditions_tag_frag' : conditions_tag_frag,
        })
 
    msg.info(':'*40)
    msg.info('input files:     %s', files)
    msg.info('events:          %s', nevts)
    msg.info('skip:            %s', skip)
    msg.info('out (ascii):     %s', output)
    msg.info('pyalg-class:     %s:%s', pyalg_pkg, pyalg_cls)
    msg.info('include:         %s', include)
    msg.info('exclude:         %s', exclude)
    msg.info('conditions_tag:  %s', conditions_tag)
    
    if dump_jobo and isinstance(dump_jobo, str):
        try:
            with open(dump_jobo, 'w') as f:
                f.write(jobo)
        except Exception as err:
            msg.warning('problem while dumping joboption file to [%s]:\n%s',
                        dump_jobo, err)
 
    from collections import namedtuple
    Options = namedtuple('Options',
                         'oname do_clean_up athena_opts full_log')
    opts = Options(oname=output,
                   do_clean_up=do_clean_up,
                   full_log=full_log,
                   athena_opts=athena_opts)
    
    sc, out = 1, "<N/A>"
    msg.info('running dumper...')
    sc,out = _run_jobo(jobo, msg, opts)
    msg.info('dumper done')
    if output != os.devnull:
        msg.info('writing logfile: %s.log', output)
        try:
            with open('%s.log'%output, 'w') as f:
                for l in out.splitlines():
                    print (l, file=f)
                print ("### EOF ###", file=f)
            
        except Exception as err:
            msg.warning('problem writing out logfile [%s.log]:\n%s',
                        output, err)
 
    msg.info('bye.')
    msg.info(':'*40)
    return sc, out

Variable Documentation

__all__

list python.SgDumpLib.__all__

private

Initial value:

=  [
    'run_sg_dump',
    ]

Definition at line 16 of file SgDumpLib.py.

__author__

str python.SgDumpLib.__author__ = "Sebastien Binet <binet@cern.ch>"

private

Definition at line 14 of file SgDumpLib.py.

__doc__

str python.SgDumpLib.__doc__

private

Initial value:

=  """\
API for the sg-dump script (which dumps an ASCII representation of events in
POOL or RAW files
"""

Definition at line 10 of file SgDumpLib.py.