Revision 0473ed5e226f2a1bc702fb1c6f1210ee721ddc33 authored by Rene Gassmoeller on 03 November 2022, 16:37:30 UTC, committed by GitHub on 03 November 2022, 16:37:30 UTC
Update Readme with new links
autocombine.py
#!/usr/bin/env python
#
# ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
#
#<LicenseText>
#
# CitcomS.py by Eh Tan, Eun-seo Choi, and Pururav Thoutireddy.
# Copyright (C) 2002-2005, California Institute of Technology.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
#
#</LicenseText>
#
# ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
'''Automatically find the input parameters from CitcomS input file and run
'batchcombine.py'
usage: autocombine.py machinefile inputfile step1 [step2 [...] ]
'''
# default values for CitcomS input
defaults = {'output_format': 'ascii',
'output_optional': 'surf,botm',
'output_optional_EL': 'heating',
'buoy_type': 1,
'tracer_flavors': 2,
'nprocx': 1,
'nprocy': 1,
'nprocz': 1,
'nodex': 9,
'nodey': 9,
'nodez': 9}
def normalize_optional(output_optional):
fields = []
for opt in output_optional.split(','):
## remove the leading/trailing whitespaces
opt = opt.strip()
## retain fields that are node-based
if opt in ('pressure', 'stress', 'comp_nd','phase'):
fields.append(opt)
return ','.join(fields)
def normalize_optional_EL(output_optional_EL):
fields = []
for opt_EL in output_optional_EL.split(','):
## remove the leading/trailing whitespaces
opt_EL = opt_EL.strip()
## retain fields that are node-based
if opt_EL in ('heating'):
fields.append(opt_EL)
return ','.join(fields)
if __name__ == '__main__':
import sys
import batchcombine as bc
if len(sys.argv) < 4:
print __doc__
sys.exit(1)
machinefile = sys.argv[1]
inputfile = sys.argv[2]
timesteps = [int(i) for i in sys.argv[3:]]
# parse input
from parser import Parser
parser = Parser(defaults)
parser.read(inputfile)
datadir = parser.getstr('datadir')
datafile = parser.getstr('datafile')
output_format = parser.getstr('output_format')
if output_format != 'ascii':
print "Error: don't know how to combine the output", \
"(output_format=%s)" % output_format
sys.exit(1)
output_optional = parser.getstr('output_optional')
optional_fields = normalize_optional(output_optional)
output_optional_EL = parser.getstr('output_optional_EL')
optional_fields_EL = normalize_optional_EL(output_optional_EL)
buoy_type = parser.getint('buoy_type')
nflavors = parser.getint('tracer_flavors')
if buoy_type == 0:
ncompositions = nflavors
elif buoy_type == 1:
ncompositions = nflavors - 1
else:
print "Error: don't know how to combine the output", \
"(buoy_type=%d)" % buoy_type
sys.exit(1)
nodex = parser.getint('nodex')
nodey = parser.getint('nodey')
nodez = parser.getint('nodez')
ncap = parser.getint('nproc_surf')
nprocx = parser.getint('nprocx')
nprocy = parser.getint('nprocy')
nprocz = parser.getint('nprocz')
totalnodes = nprocx * nprocy * nprocz * ncap
nodelist = bc.machinefile2nodelist(machinefile, totalnodes)
for timestep in timesteps:
# combining coord, velo, temp, and visc
bc.batchcombine(nodelist, datadir, datafile, timestep,
nodex, nodey, nodez,
ncap, nprocx, nprocy, nprocz,
'coord,velo,visc', 0)
# combining optional fields, if necessary
if optional_fields:
bc.batchcombine(nodelist, datadir, datafile, timestep,
nodex, nodey, nodez,
ncap, nprocx, nprocy, nprocz,
optional_fields, ncompositions)
# combining optional fields (based on element number), if necessary
if optional_fields_EL:
bc.batchcombine(nodelist, datadir, datafile, timestep,
(nodex - 1), (nodey-1), (nodez-1),
ncap, (nprocx - 0), (nprocy-0), (nprocz - 0),
optional_fields_EL, ncompositions)
# version
# $Id$
# End of file
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