/usr/lib/python2.7/dist-packages/pytools/batchjob.py is in python-pytools 2014.3-2.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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from pytools import assert_not_a_file
assert_not_a_file(dest)
inf = open(src, "rb")
try:
outf = open(dest, "wb")
try:
outf.write(inf.read())
finally:
outf.close()
finally:
inf.close()
def get_timestamp():
from datetime import datetime
return datetime.now().strftime("%Y-%m-%d-%H%M%S")
class BatchJob(object):
def __init__(self, moniker, main_file, aux_files=[], timestamp=None):
import os
import os.path
if timestamp is None:
timestamp = get_timestamp()
self.moniker = (
moniker
.replace("/", "-")
.replace("-$DATE", "")
.replace("$DATE-", "")
.replace("$DATE", "")
)
self.subdir = moniker.replace("$DATE", timestamp)
self.path = os.path.join(
os.getcwd(),
self.subdir)
os.makedirs(self.path)
runscript = open("%s/run.sh" % self.path, "w")
import sys
runscript.write("%s %s setup.cpy"
% (sys.executable, main_file))
runscript.close()
from os.path import basename
if not main_file.startswith("-m "):
_cp(main_file, os.path.join(self.path, basename(main_file)))
for aux_file in aux_files:
_cp(aux_file, os.path.join(self.path, basename(aux_file)))
def write_setup(self, lines):
import os.path
setup = open(os.path.join(self.path, "setup.cpy"), "w")
setup.write("\n".join(lines))
setup.close()
class INHERIT(object):
pass
class GridEngineJob(BatchJob):
def submit(self, env={"LD_LIBRARY_PATH": INHERIT, "PYTHONPATH": INHERIT},
memory_megs=None, extra_args=[]):
from subprocess import Popen
args = [
"-N", self.moniker,
"-cwd",
]
from os import getenv
for var, value in env.iteritems():
if value is INHERIT:
value = getenv(var)
args += ["-v", "%s=%s" % (var, value)]
if memory_megs is not None:
args.extend(["-l", "mem=%d" % memory_megs])
args.extend(extra_args)
subproc = Popen(["qsub"] + args + ["run.sh"], cwd=self.path)
if subproc.wait() != 0:
raise RuntimeError("Process submission of %s failed" % self.moniker)
class PBSJob(BatchJob):
def submit(self, env={"LD_LIBRARY_PATH": INHERIT, "PYTHONPATH": INHERIT},
memory_megs=None, extra_args=[]):
from subprocess import Popen
args = [
"-N", self.moniker,
"-d", self.path,
]
if memory_megs is not None:
args.extend(["-l", "pmem=%dmb" % memory_megs])
from os import getenv
for var, value in env.iteritems():
if value is INHERIT:
value = getenv(var)
args += ["-v", "%s=%s" % (var, value)]
args.extend(extra_args)
subproc = Popen(["qsub"] + args + ["run.sh"], cwd=self.path)
if subproc.wait() != 0:
raise RuntimeError("Process submission of %s failed" % self.moniker)
def guess_job_class():
from subprocess import Popen, PIPE, STDOUT
qstat_helplines = Popen(["qstat", "--help"],
stdout=PIPE, stderr=STDOUT).communicate()[0].split("\n")
if qstat_helplines[0].startswith("GE"):
return GridEngineJob
else:
return PBSJob
class ConstructorPlaceholder:
def __init__(self, classname, *args, **kwargs):
self.classname = classname
self.args = args
self.kwargs = kwargs
def arg(self, i):
return self.args[i]
def kwarg(self, name):
return self.kwargs[name]
def __str__(self):
return "%s(%s)" % (self.classname,
",".join(
[str(arg) for arg in self.args]
+ ["%s=%s" % (kw, repr(val)) for kw, val in self.kwargs.iteritems()]
)
)
__repr__ = __str__
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