/usr/share/pyshared/adios/skel_xml.py is in libadios-dev 1.7.0-4.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 | #!/usr/bin/env python
from __future__ import absolute_import, division, print_function, unicode_literals
import argparse
import os
import xml.dom.minidom
import skel_bpy
import skel_settings
def pparse_command_line (parent_parser):
parser = argparse.ArgumentParser (
parents = [parent_parser],
formatter_class=argparse.RawDescriptionHelpFormatter,
prog='skel',
#add_help=False,
description='''\
skel xml
create an xml file to define the I/O pattern for the target skeletal application''')
parser.add_argument ('project', metavar='project', help='Name of the skel project')
parser.add_argument ('-y', '--yaml-file', dest='yamlfile', help='yaml file to use for I/O pattern')
parser.add_argument ('-f', '--force', dest='force', action='store_true', help='overwrite existing XML file')
parser.set_defaults(force=False)
return parser.parse_args()
def parse_command_line():
parser = argparse.ArgumentParser (description='Rewrite elements of the adios config file that would produce invalid syntax in the generated code, e.g. gwrite attributes containing + or %')
parser.add_argument ('project', metavar='project', help='Name of the skel project')
return parser.parse_args()
def cleanse (str):
# Trim the name at the first open paren to deal with gts issue
str = str.split('(')[0]
# replace unfriendly characters with safer versions
str = str.replace ("+", "__plus__")
str = str.replace ("%", "__pct__")
str = str.replace ("/", "__div__")
str = str.replace ("-", "__minus__")
str = str.replace ("**", "__pow__")
str = str.replace ("*", "__mul__")
return str
def create_skel_xml (parent_parser):
args = pparse_command_line (parent_parser)
if args.yamlfile is not None:
create_from_yaml (args.project, args)
else:
create_from_xml (args.project, args)
def create_from_yaml (project,args):
#print "using yaml file"
outfilename = project + '_skel.xml'
# Only proceed if outfilename does not already exist, or if -f was used
if os.path.exists (outfilename) and not args.force:
print( "%s exists, aborting. Delete the file or use -f to overwrite." % outfilename)
return 999
skel_file = open (outfilename, 'w')
bpy = skel_bpy.skel_bpy (args.yamlfile)
# Okay, it's time to try out Cheetah.
from Cheetah.Template import Template
template_file = open (os.path.expanduser("~/.skel/templates/xml.tmpl"), 'r')
t = Template(file=template_file)
t.bpy = bpy
skel_file.write (str(t) )
# All done. That was easy.
def create_from_xml (project, args):
outfilename = project + '_skel.xml'
# Only proceed if outfilename does not already exist, or if -f was used
if os.path.exists (outfilename) and not args.force:
print( "%s exists, aborting. Delete the file or use -f to overwrite." % outfilename)
return 999
skel_file = open (outfilename, 'w')
doc = xml.dom.minidom.parse (project + '.xml')
# TODO: remove this application specific kludge.
#remove diagnostic groups (xgc1)
groups = doc.getElementsByTagName ('adios-group')
for g in groups:
if g.getAttribute('name').startswith ('diag'):
# remove this group
doc.getElementsByTagName ('adios-config')[0].removeChild(g)
methods = doc.getElementsByTagName ('method')
for m in methods:
if m.getAttribute ('group').startswith ('diag'):
# remove this method
doc.getElementsByTagName ('adios-config')[0].removeChild(m)
for m in methods:
# TODO: Before adding this node, we should remove any text that is already here...
token = doc.createTextNode ('***skel-parameters***')
m.appendChild (token)
#deal with the language
lang = doc.getElementsByTagName ('adios-config')[0].getAttribute ('host-language')
# #for now, assume the skeletal will be C
# if (lang == 'Fortran'):
# flip_dims = 'True'
# doc.getElementsByTagName ('adios-config')[0].setAttribute ('host-language', 'C')
# else:
# flip_dims = 'False'
#Do not change the language
flip_dims = 'False'
#clean up the variables
vars = doc.getElementsByTagName ('var')
for v in vars:
gwrite = v.getAttributeNode ('gwrite')
dims = v.getAttributeNode ('dimensions')
name = v.getAttributeNode ('name')
if gwrite != None:
gwrite.value = cleanse (gwrite.value)
if dims != None:
dims.value = cleanse (dims.value)
if flip_dims == 'True':
dims.value = ','.join(dims.value.split(',')[::-1] )
if name != None:
name.value = cleanse (name.value)
global_bounds = doc.getElementsByTagName ('global-bounds')
for gb in global_bounds:
dims = gb.getAttribute ('dimensions')
offsets = gb.getAttribute ('offsets')
if dims != None:
dims = cleanse (dims)
if flip_dims == 'True':
dims = ','.join (dims.split(',')[::-1] )
gb.setAttribute ('dimensions', dims)
if offsets != None:
offsets = cleanse (offsets)
if flip_dims == 'True':
offsets = ','.join (offsets.split(',')[::-1] )
gb.setAttribute ('offsets', offsets)
xmlstr = doc.toxml()
# ADIOS stumbles when there is no newline after the xml declaration, so we'll add one here
xmlstr = xmlstr.replace ("?>", "?>\n", 1)
skel_file.write (xmlstr)
def main ():
skel_settings.create_settings_dir_if_needed()
args = parse_command_line()
create_skel_xml (args.project)
if __name__ == "__main__":
main()
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