/usr/bin/adiosxml2h is in libadios-bin 1.13.0-1.
This file is owned by root:root, with mode 0o755.
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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 | #!/usr/bin/python
import sys
import os
# Make sure that the gpp modules are available...
# ...for the installed gpp
sys.path.insert (0, os.path.dirname(sys.argv[0]) + '/../lib/python')
# ...for the gpp in the utils dir of the adios source
#sys.path.insert (0, os.path.dirname(sys.argv[0]))
import ad_config
import type_mapper
# checkXML attempts to call adios_lint to verify that adios will accept the xml file as valid
def checkXML (config_file, path):
if path == '':
adios_lint = 'adios_lint '
elif os.path.exists (path+'/adios_lint'):
adios_lint = path + '/adios_lint '
elif os.path.exists (path+'/../adios_lint/adios_lint'):
adios_lint = path+'/../adios_lint/adios_lint '
else:
adios_lint = 'adios_lint '
rv = os.system (adios_lint + config_file)
if rv == 0:
return 'success'
elif rv == 32512: # System unable to find adios_lint command
print("Unable to find adios_lint. Proceeding with code generation.")
return 'success'
else:
print("gpp.py failed.")
return 'failure'
def get_c_groupsize_code (group):
groupsize_code_string = ''
groupsize_code_string += 'adios_groupsize = '
for v in group.get_vars():
if v.is_scalar():
if v.get_type() != 'string':
groupsize_code_string += ('%d' % type_mapper.get_size (v.get_type() ) + ' \\\n + ')
else:
groupsize_code_string += ('strlen(' + v.get_gwrite() + ')' + ' \\\n + ')
else:
groupsize_code_string += ('%d * ' % type_mapper.get_size (v.get_type() ) )
for d in v.get_dimensions():
# need to check whether this is the timestep
groupsize_code_string += '(' + d + ') * '
groupsize_code_string = groupsize_code_string.rstrip ('* ')
groupsize_code_string += (' \\\n + ')
# remove the final +\, and add the ;
groupsize_code_string = groupsize_code_string.rstrip('+\\\n ') + ';'
groupsize_code_string += '\nadios_group_size (adios_handle, adios_groupsize, &adios_totalsize);'
return groupsize_code_string;
def get_fortran_groupsize_code (group):
#print('Get Fortran Groupsize code for group "'+group.get_name()+'"')
groupsize_code_string = 'adios_groupsize = 0\n'
groupsize_code_string += 'adios_groupsize = adios_groupsize + '
for v in group.get_vars():
#print(' count variable "'+v.get_fullpath()+'"')
if (v.is_scalar() ):
if v.get_type() != 'string':
groupsize_code_string += ('%d_8' % type_mapper.get_size (v.get_type() ) + ' &\n + ')
else:
groupsize_code_string += ('len_trim(' + v.get_gwrite() + ')' + ' &\n + ')
else:
groupsize_code_string += ('%d_8 * ' % type_mapper.get_size (v.get_type() ) )
for d in v.get_dimensions():
#print(' count dim "'+d+'"')
# need to check whether this is the timestep
groupsize_code_string += '(' + d + ') * '
groupsize_code_string = groupsize_code_string.rstrip ('* ')
groupsize_code_string += (' &\n + ')
# remove the final &+
groupsize_code_string = groupsize_code_string.rstrip('+\n &')
groupsize_code_string += '\ncall adios_group_size (adios_handle, adios_groupsize, adios_totalsize, adios_err)'
#print('Done Fortran Groupsize')
return groupsize_code_string;
def get_fortran_write_statements (group):
statements = ""
for item in group.get_ordered_contents():
if item.__class__.__name__ == 'gwrite':
statements += '\n' + item.get_src()
continue
if item.__class__.__name__ == 'attr':
# Ignore the attributes for now
continue
# Otherwise, the item must be a variable
var = item
statements += '\ncall adios_write (adios_handle, "' + var.get_fullpath() + '", ' + var.get_gwrite() + ', adios_err)'
statements += '\n'
return statements
def get_c_write_statements (group):
statements = ""
for item in group.get_ordered_contents():
if item.__class__.__name__ == 'gwrite':
statements += '\n' + item.get_src()
continue
if item.__class__.__name__ == 'attr':
# Ignore the attributes for now
continue
# Otherwise, the item must be a variable
var = item
# The tricky bit here is deciding whether we need the & before the variable name.
# We omit it in two cases: 1) the variable type is string, or 2) the variable is not a scalar
if (var.get_c_type() == 'string' or var.get_dimensions() != None):
var_prefix = ''
else:
var_prefix = '&'
statements += '\nadios_write (adios_handle, "' + var.get_fullpath() + '", ' + var_prefix + var.get_gwrite() + ');'
statements += '\n'
return statements
def get_fortran_read_statements (group):
statements = ""
# Make a selection to capture writes done by the corresponding process in the writing application
statements += 'call adios_selection_writeblock (s, rank)\n'
for var in group.get_vars():
if var.get_dimensions() == None:
continue
statements += 'call adios_schedule_read (fp, s, "' + var.get_name() + '", 0, 1, ' + var.get_gwrite() + ', adios_err)\n'
statements += '\ncall adios_perform_reads (fp, adios_err)\n'
statements += 'call adios_selection_delete (s)\n'
return statements
def get_c_read_statements (group):
statements = ""
# Make a selection to capture writes done by the corresponding process in the writing application
statements += 's = adios_selection_writeblock (rank);\n'
#statements += 'uint64_t counts[64];\n'
for var in group.get_vars():
if var.get_dimensions() == None:
continue
# The tricky bit here is deciding whether we need the & before the variable name.
# We omit it in two cases: 1) the variable type is string, or 2) the variable is not a scalar
if (var.get_c_type() == 'string' or var.get_dimensions() != None):
var_prefix = ''
else:
var_prefix = '&'
statements += 'adios_schedule_read (fp, s, "' + var.get_name() + '", 0, 1, ' + var_prefix + var.get_gwrite() + ');\n'
statements += 'adios_perform_reads (fp, 1);\n'
statements += 'adios_selection_delete (s);\n'
return statements
def generate_fortran (config):
# Output a gwrite_*.fh file for each group in the config
for group in config.get_groups():
# Open file - the filename is gwrite_<group>.fh
gwfile = open ('gwrite_' + group.get_name() + '.fh', 'w')
# Set groupsize
gwfile.write (get_fortran_groupsize_code (group) )
# Write vars
gwfile.write (get_fortran_write_statements (group) )
# Close file
gwfile.close()
# Output a gread_*.fh file for each group in the config
for group in config.get_groups():
# Open file - the filename is gread_<group>.fh
grfile = open ('gread_' + group.get_name() + '.fh', 'w')
# Read vars
grfile.write (get_fortran_read_statements (group) )
# Close file
grfile.close()
def generate_c (config):
#print("c")
# Output a gwrite_*.ch file for each group in the config
for group in config.get_groups():
# Open file - the filename is gwrite_<group>.ch
gwfile = open ('gwrite_' + group.get_name() + '.ch', 'w')
# Set groupsize
gwfile.write (get_c_groupsize_code (group) )
# Write vars
gwfile.write (get_c_write_statements (group) )
# Close ch file
gwfile.close()
# Output a gread_*.ch file for each group in the config
for group in config.get_groups():
# Open file - the filename is gread_<group>.ch
grfile = open ('gread_' + group.get_name() + '.ch', 'w')
# Read vars
grfile.write (get_c_read_statements (group) )
# Close ch file
grfile.close()
def main (argv=None):
# Must be called with one argument, the name of the xml file
if len (sys.argv) != 2:
print('Usage: gpp.py <config file>\n')
return 1
# If possible, run adios_lint to catch malformed config files
check_val = checkXML (sys.argv[1], os.path.dirname(sys.argv[0]))
if check_val != 'success':
return 1
# The ad_config object provides all relevant info from the XML file
config = ad_config.adiosConfig (sys.argv[1])
# Now just call the generator for the specified language
lang = config.get_host_language().lower()
if lang == 'fortran':
generate_fortran (config)
elif lang == 'c' or lang == 'cpp':
generate_c (config)
else:
print("Fatal: Language unknown or unspecified")
raise SystemExit
if __name__ == "__main__":
main()
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