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-rwxr-xr-xutil/pbs/job.py36
-rwxr-xr-xutil/pbs/send.py69
2 files changed, 72 insertions, 33 deletions
diff --git a/util/pbs/job.py b/util/pbs/job.py
index 4ead50de9..f370862de 100755
--- a/util/pbs/job.py
+++ b/util/pbs/job.py
@@ -83,37 +83,35 @@ def readval(filename):
if __name__ == '__main__':
rootdir = env.setdefault('ROOTDIR', os.getcwd())
- jobid = env['PBS_JOBID']
- jobname = env['PBS_JOBNAME']
- jobdir = joinpath(rootdir, jobname)
+ pbs_jobid = env['PBS_JOBID']
+ pbs_jobname = env['PBS_JOBNAME']
basedir = joinpath(rootdir, 'Base')
- user = env['USER']
-
+ jobname = env.setdefault('JOBNAME', pbs_jobname)
+ jobfile = env.setdefault('JOBFILE', joinpath(basedir, 'test.py'))
+ outdir = env.setdefault('OUTPUT_DIR', joinpath(rootdir, jobname))
env['POOLJOB'] = 'True'
- env['OUTPUT_DIR'] = jobdir
- env['JOBFILE'] = joinpath(basedir, 'test.py')
- env['JOBNAME'] = jobname
+
+ if os.path.isdir("/work"):
+ workbase = "/work"
+ else:
+ workbase = "/tmp/"
+
+ workdir = joinpath(workbase, '%s.%s' % (env['USER'], pbs_jobid))
def echofile(filename, string):
try:
- f = file(joinpath(jobdir, filename), 'w')
+ f = file(joinpath(outdir, filename), 'w')
print >>f, string
f.flush()
f.close()
except IOError,e:
sys.exit(e)
- if os.path.isdir("/work"):
- workbase = "/work"
- else:
- workbase = "/tmp/"
-
- workdir = joinpath(workbase, '%s.%s' % (user, jobid))
-
os.umask(0022)
echofile('.start', date())
- echofile('.jobid', jobid)
+ echofile('.pbs_jobid', pbs_jobid)
+ echofile('.pbs_jobname', pbs_jobid)
echofile('.host', socket.gethostname())
if os.path.isdir(workdir):
@@ -132,7 +130,7 @@ if __name__ == '__main__':
except OSError,e:
sys.exit(e)
- os.symlink(joinpath(jobdir, 'output'), 'status.out')
+ os.symlink(joinpath(outdir, 'output'), 'status.out')
args = [ joinpath(basedir, 'm5'), joinpath(basedir, 'run.py') ]
if not len(args):
@@ -147,7 +145,7 @@ if __name__ == '__main__':
if not childpid:
# Execute command
sys.stdin.close()
- fd = os.open(joinpath(jobdir, "output"),
+ fd = os.open(joinpath(outdir, "output"),
os.O_WRONLY | os.O_CREAT | os.O_TRUNC)
os.dup2(fd, sys.stdout.fileno())
os.dup2(fd, sys.stderr.fileno())
diff --git a/util/pbs/send.py b/util/pbs/send.py
index f8ca5209c..ecb0be0ec 100755
--- a/util/pbs/send.py
+++ b/util/pbs/send.py
@@ -30,9 +30,9 @@
import os, os.path, re, socket, sys
from os import environ as env, listdir
-from os.path import basename, isdir, isfile, islink, join as joinpath
+from os.path import basename, isdir, isfile, islink, join as joinpath, normpath
from filecmp import cmp as filecmp
-from shutil import copyfile
+from shutil import copy
def nfspath(dir):
if dir.startswith('/.automount/'):
@@ -41,6 +41,38 @@ def nfspath(dir):
dir = '/n/%s%s' % (socket.gethostname().split('.')[0], dir)
return dir
+def syncdir(srcdir, destdir):
+ srcdir = normpath(srcdir)
+ destdir = normpath(destdir)
+ if not isdir(destdir):
+ sys.exit('destination directory "%s" does not exist' % destdir)
+
+ for root, dirs, files in os.walk(srcdir):
+ root = normpath(root)
+ prefix = os.path.commonprefix([root, srcdir])
+ root = root[len(prefix):]
+ if root.startswith('/'):
+ root = root[1:]
+ for rem in [ d for d in dirs if d.startswith('.') or d == 'SCCS']:
+ dirs.remove(rem)
+
+ for entry in dirs:
+ newdir = joinpath(destdir, root, entry)
+ if not isdir(newdir):
+ os.mkdir(newdir)
+ print 'mkdir', newdir
+
+ for i,d in enumerate(dirs):
+ if islink(joinpath(srcdir, root, d)):
+ dirs[i] = joinpath(d, '.')
+
+ for entry in files:
+ dest = normpath(joinpath(destdir, root, entry))
+ src = normpath(joinpath(srcdir, root, entry))
+ if not isfile(dest) or not filecmp(src, dest):
+ print 'copy %s %s' % (dest, src)
+ copy(src, dest)
+
progpath = nfspath(sys.path[0])
progname = basename(sys.argv[0])
usage = """\
@@ -107,16 +139,7 @@ for arg in args:
if not listonly and not onlyecho and isdir(linkdir):
if verbose:
print 'Checking for outdated files in Link directory'
- entries = listdir(linkdir)
- for entry in entries:
- link = joinpath(linkdir, entry)
- if not islink(link) or not isfile(link):
- continue
-
- base = joinpath(basedir, entry)
- if not isfile(base) or not filecmp(link, base):
- print 'Base/%s is different than Link/%s: copying' % (entry, entry)
- copyfile(link, base)
+ syncdir(linkdir, basedir)
import job, jobfile, pbs
@@ -164,6 +187,21 @@ if not onlyecho:
jl.append(jobname)
joblist = jl
+def setname(jobid, jobname):
+ # since pbs can handle jobnames of 15 characters or less, don't
+ # use the raj hack.
+ if len(jobname) <= 15:
+ return
+
+ import socket
+ s = socket.socket()
+ # Connect to pbs.pool and send the jobid/jobname pair to port
+ # 24465 (Raj didn't realize that there are only 64k ports and
+ # setup inetd to point to port 90001)
+ s.connect(("pbs.pool", 24465))
+ s.send("%s %s\n" % (jobid, jobname))
+ s.close()
+
for jobname in joblist:
jobdir = joinpath(rootdir, jobname)
@@ -176,10 +214,11 @@ for jobname in joblist:
qsub = pbs.qsub()
qsub.pbshost = 'simpool.eecs.umich.edu'
qsub.stdout = joinpath(jobdir, 'jobout')
- qsub.name = jobname
+ qsub.name = jobname[:15]
qsub.join = True
qsub.node_type = 'FAST'
qsub.env['ROOTDIR'] = rootdir
+ qsub.env['JOBNAME'] = jobname
if len(queue):
qsub.queue = queue
qsub.build(joinpath(progpath, 'job.py'))
@@ -190,6 +229,8 @@ for jobname in joblist:
if not onlyecho:
ec = qsub.do()
if ec == 0:
- print 'PBS Jobid: %s' % qsub.result
+ jobid = qsub.result
+ print 'PBS Jobid: %s' % jobid
+ setname(jobid, jobname)
else:
print 'PBS Failed'