def getOutputData(self, outputDir=None, names=None, force=False):
"""Retrieve data stored on SE to dir (default=job output workspace).
If names=None, then all outputdata is downloaded otherwise names should
be a list of files to download. If force=True then data will be redownloaded
even if the file already exists.
Note that if called on a master job then all subjobs outputwill be downloaded.
If dir is None then the subjobs output goes into their individual
outputworkspaces as expected. If however one specifies a dir then this is
treated as a top dir and a subdir for each job will be created below it. This
will avoid overwriting files with the same name from each subjob.
Args:
outputDir (str): This string represents the output dir where the sandbox is to be placed
names (list): list of names which match namePatterns in the outputfiles
force (bool): Force the download out data potentially overwriting existing objects
"""
j = self.getJobObject()
if outputDir is not None and not os.path.isdir(outputDir):
raise GangaDiracError(
"Designated outupt path '%s' must exist and be a directory" %
outputDir)
def download(dirac_file, job, is_subjob=False):
dirac_file.localDir = job.getOutputWorkspace().getPath()
if outputDir is not None:
output_dir = outputDir
if is_subjob:
output_dir = os.path.join(outputDir, job.fqid)
if not os.path.isdir(output_dir):
os.mkdir(output_dir)
dirac_file.localDir = output_dir
if os.path.exists(
os.path.join(dirac_file.localDir,
os.path.basename(
dirac_file.lfn))) and not force:
return
try:
dirac_file.get()
return dirac_file.lfn
# should really make the get method throw if doesn't suceed. todo
except (GangaDiracError, GangaFileError) as e:
logger.warning(e)
suceeded = []
if j.subjobs:
for sj in j.subjobs:
suceeded.extend([
download(f, sj, True)
for f in outputfiles_iterator(sj, DiracFile)
if f.lfn != '' and (
names is None or f.namePattern in names)
])
else:
suceeded.extend([
download(f, j, False)
for f in outputfiles_iterator(j, DiracFile)
if f.lfn != '' and (names is None or f.namePattern in names)
])
return filter(lambda x: x is not None, suceeded)
def getOutputDataLFNs(self):
"""Retrieve the list of LFNs assigned to outputdata"""
j = self.getJobObject()
lfns = []
if j.subjobs:
for sj in j.subjobs:
lfns.extend([f.lfn for f in outputfiles_iterator(sj, DiracFile) if f.lfn != ''])
else:
lfns.extend([f.lfn for f in outputfiles_iterator(j, DiracFile) if f.lfn != ''])
return lfns
def test_outputfiles_iterator(self):
########################################################
class testfile(object):
def __init__(this, name, subfiles=[]):
this.name = name
this.subfiles = subfiles
class testfileA(testfile):
def __init__(this, name, subfiles=[]):
super(testfileA, this).__init__(name, subfiles)
class testfileB(testfile):
def __init__(this, name, subfiles=[]):
super(testfileB, this).__init__(name, subfiles)
class testJob(object):
def __init__(this, outputfiles=[], nc_outputfiles=[]):
this.outputfiles = outputfiles
this.non_copyable_outputfiles = nc_outputfiles
def predA(f):
return f.name == 'A2'
def predB(f):
return f.name == 'BS2'
########################################################
test_job = testJob(outputfiles=[testfileA('A1', subfiles=[testfileA('AS1')]), testfileA('A2'),
testfileB('B1', subfiles=[testfileB('BS1')]), testfileA('A3')],
nc_outputfiles=[testfileB('B2'), testfileA('A4'),
testfileB('B3', subfiles=[testfileB('BS2'), testfileB('BS3')]), testfileB('B4')])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfile)],
['AS1', 'A2', 'BS1', 'A3', 'B2', 'A4', 'BS2', 'BS3', 'B4'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfileA)],
['AS1', 'A2', 'A3', 'A4'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfileB)],
['BS1', 'B2', 'BS2', 'BS3', 'B4'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfile, include_subfiles=False)],
['A1', 'A2', 'B1', 'A3', 'B2', 'A4', 'B3', 'B4'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfileA, include_subfiles=False)],
['A1', 'A2', 'A3', 'A4'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfileB, include_subfiles=False)],
['B1', 'B2', 'B3', 'B4'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfile, selection_pred=predA)],
['A2'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfile, selection_pred=predB)],
['BS2'])
self.assertEqual([f.name for f in outputfiles_iterator(test_job, testfile, selection_pred=predB, include_subfiles=False)],
[])
def getOutputData(self, outputDir=None, names=None, force=False):
"""Retrieve data stored on SE to dir (default=job output workspace).
If names=None, then all outputdata is downloaded otherwise names should
be a list of files to download. If force=True then data will be redownloaded
even if the file already exists.
Note that if called on a master job then all subjobs outputwill be downloaded.
If dir is None then the subjobs output goes into their individual
outputworkspaces as expected. If however one specifies a dir then this is
treated as a top dir and a subdir for each job will be created below it. This
will avoid overwriting files with the same name from each subjob.
Args:
outputDir (str): This string represents the output dir where the sandbox is to be placed
names (list): list of names which match namePatterns in the outputfiles
force (bool): Force the download out data potentially overwriting existing objects
"""
j = self.getJobObject()
if outputDir is not None and not os.path.isdir(outputDir):
raise GangaException("Designated outupt path '%s' must exist and be a directory" % outputDir)
def download(dirac_file, job, is_subjob=False):
dirac_file.localDir = job.getOutputWorkspace().getPath()
if outputDir is not None:
output_dir = outputDir
if is_subjob:
output_dir = os.path.join(outputDir, job.fqid)
if not os.path.isdir(output_dir):
os.mkdir(output_dir)
dirac_file.localDir = output_dir
if os.path.exists(os.path.join(dirac_file.localDir, os.path.basename(dirac_file.lfn))) and not force:
return
try:
if isType(dirac_file, DiracFile):
dirac_file.get(localPath=dirac_file.localDir)
else:
dirac_file.get()
return dirac_file.lfn
# should really make the get method throw if doesn't suceed. todo
except GangaException as e:
logger.warning(e)
suceeded = []
if j.subjobs:
for sj in j.subjobs:
suceeded.extend([download(f, sj, True) for f in outputfiles_iterator(sj, DiracFile) if f.lfn != '' and (names is None or f.namePattern in names)])
else:
suceeded.extend([download(f, j, False) for f in outputfiles_iterator(j, DiracFile) if f.lfn != '' and (names is None or f.namePattern in names)])
return filter(lambda x: x is not None, suceeded)
def test_outputfiles_iterator():
from GangaDirac.Lib.Backends.DiracUtils import outputfiles_iterator
########################################################
class TestFile(object):
def __init__(self, name, subfiles=[]):
self.name = name
self.subfiles = subfiles
class TestFileA(TestFile):
def __init__(self, name, subfiles=[]):
super(TestFileA, self).__init__(name, subfiles)
class TestFileB(TestFile):
def __init__(self, name, subfiles=[]):
super(TestFileB, self).__init__(name, subfiles)
class TestJob(object):
def __init__(self, outputfiles=[], nc_outputfiles=[]):
self.outputfiles = outputfiles
self.non_copyable_outputfiles = nc_outputfiles
def pred_a(f):
return f.name == 'A2'
def pred_b(f):
return f.name == 'BS2'
########################################################
test_job = TestJob(outputfiles=[TestFileA('A1', subfiles=[TestFileA('AS1')]), TestFileA('A2'),
TestFileB('B1', subfiles=[TestFileB('BS1')]), TestFileA('A3')],
nc_outputfiles=[TestFileB('B2'), TestFileA('A4'),
TestFileB('B3', subfiles=[TestFileB('BS2'), TestFileB('BS3')]), TestFileB('B4')])
assert [f.name for f in outputfiles_iterator(test_job, TestFile)] == ['AS1', 'A2', 'BS1', 'A3', 'B2', 'A4', 'BS2', 'BS3', 'B4']
assert [f.name for f in outputfiles_iterator(test_job, TestFileA)] == ['AS1', 'A2', 'A3', 'A4']
assert [f.name for f in outputfiles_iterator(test_job, TestFileB)] == ['BS1', 'B2', 'BS2', 'BS3', 'B4']
assert [f.name for f in outputfiles_iterator(test_job, TestFile, include_subfiles=False)] == ['A1', 'A2', 'B1', 'A3', 'B2', 'A4', 'B3', 'B4']
assert [f.name for f in outputfiles_iterator(test_job, TestFileA, include_subfiles=False)] == ['A1', 'A2', 'A3', 'A4']
assert [f.name for f in outputfiles_iterator(test_job, TestFileB, include_subfiles=False)] == ['B1', 'B2', 'B3', 'B4']
assert [f.name for f in outputfiles_iterator(test_job, TestFile, selection_pred=pred_a)] == ['A2']
assert [f.name for f in outputfiles_iterator(test_job, TestFile, selection_pred=pred_b)] == ['BS2']
assert [f.name for f in outputfiles_iterator(test_job, TestFile, selection_pred=pred_b, include_subfiles=False)] == []
def test_outputfiles_iterator(self):
########################################################
class testfile(object):
def __init__(this, name, subfiles=[]):
this.name = name
this.subfiles = subfiles
class testfileA(testfile):
def __init__(this, name, subfiles=[]):
super(testfileA, this).__init__(name, subfiles)
class testfileB(testfile):
def __init__(this, name, subfiles=[]):
super(testfileB, this).__init__(name, subfiles)
class testJob(object):
def __init__(this, outputfiles=[], nc_outputfiles=[]):
this.outputfiles = outputfiles
this.non_copyable_outputfiles = nc_outputfiles
def predA(f):
return f.name == 'A2'
def predB(f):
return f.name == 'BS2'
########################################################
test_job = testJob(
outputfiles=[
testfileA('A1', subfiles=[testfileA('AS1')]),
testfileA('A2'),
testfileB('B1', subfiles=[testfileB('BS1')]),
testfileA('A3')
],
nc_outputfiles=[
testfileB('B2'),
testfileA('A4'),
testfileB('B3', subfiles=[testfileB('BS2'),
testfileB('BS3')]),
testfileB('B4')
])
self.assertEqual(
[f.name for f in outputfiles_iterator(test_job, testfile)],
['AS1', 'A2', 'BS1', 'A3', 'B2', 'A4', 'BS2', 'BS3', 'B4'])
self.assertEqual(
[f.name for f in outputfiles_iterator(test_job, testfileA)],
['AS1', 'A2', 'A3', 'A4'])
self.assertEqual(
[f.name for f in outputfiles_iterator(test_job, testfileB)],
['BS1', 'B2', 'BS2', 'BS3', 'B4'])
self.assertEqual([
f.name for f in outputfiles_iterator(
test_job, testfile, include_subfiles=False)
], ['A1', 'A2', 'B1', 'A3', 'B2', 'A4', 'B3', 'B4'])
self.assertEqual([
f.name for f in outputfiles_iterator(
test_job, testfileA, include_subfiles=False)
], ['A1', 'A2', 'A3', 'A4'])
self.assertEqual([
f.name for f in outputfiles_iterator(
test_job, testfileB, include_subfiles=False)
], ['B1', 'B2', 'B3', 'B4'])
self.assertEqual([
f.name for f in outputfiles_iterator(
test_job, testfile, selection_pred=predA)
], ['A2'])
self.assertEqual([
f.name for f in outputfiles_iterator(
test_job, testfile, selection_pred=predB)
], ['BS2'])
self.assertEqual([
f.name for f in outputfiles_iterator(test_job,
testfile,
selection_pred=predB,
include_subfiles=False)
], [])
