the initial stage since the pressure is not yet calculated
"""
parser = argparse.ArgumentParser(
description='Make snapshot of blood vessel network creation')
parser.add_argument('filename',
type=argparse.FileType('r'),
default=sys.stdin)
parser.add_argument('debug_filename',
type=argparse.FileType('r'),
default=sys.stdin)
parser.add_argument('-g', '--grp_pattern', default='*/vessels')
parser.add_argument('--noPov', default=False, action='store_true')
parser.add_argument('-v', '--movie', default=False, action='store_true')
goodArguments, otherArguments = parser.parse_known_args()
qsub.parse_args(otherArguments)
dbg_fn = goodArguments.debug_filename.name
options = getattr(krebs.povrayRenderSettings, 'dbg_vessels')
f = h5py.File(dbg_fn, 'r')
if not goodArguments.noPov:
jobs = []
a = jobs.append
#for fn in filenames:
with h5files.open(dbg_fn, 'r') as f:
paths = myutils.walkh5(f, '*/vessels')
for path in paths:
j = RenderJob(f, path, '', options)
a(j)
for job in jobs:
import os, sys
from os.path import join, dirname
sys.path.append(join(dirname(__file__), '.'))
import stat
import qsub
def ClientWorker(*args, **kwargs):
print("hello, i'm running on the cluster. my args are %s and %s" %
(str(args), str(kwargs)))
print("my cwd is: %s" % os.getcwd())
if not qsub.is_client and __name__ == '__main__':
argv = qsub.parse_args(sys.argv)
qsub.submit(qsub.func(ClientWorker, 'Test Argument', a_kw_arg=9001),
name='qsub-script-python-test',
num_cpus=1,
days=0,
hours=0.1,
mem='100MB',
change_cwd=True)
test_program_name = 'client-test-script.sh'
with open(test_program_name, 'w') as f:
f.write('''#! /bin/sh\n''')
f.write('''echo "hello, i'm running on the cluster"\n''')
f.write('''echo "my cwd is:"\n''')
f.write('''pwd\n''')
