def workflow(self, comb):
""" """
comb_ok = False
logger.info(slugify(comb) + \
' starts to compile')
try:
export = "source /opt/intel/bin/compilervars.sh intel64; "
src_directory = "/home/arrouan/workspace/aevol/git/world/aevol/"
bin_directory = "/home/arrouan/workspace/aevol/compiled_binary/"
configure_option = "--with-tracing --without-x"
if comb['parallel'] == 'tbb':
configure_option += " --with-tbb"
if comb['blas'] == 'openblas':
configure_option += " --with-blas"
elif comb['blas'] == 'mkl':
configure_option += " --with-mkl"
elif comb['blas'] == 'atlas':
configure_option += " --with-atlas"
if comb['experiment'] == 'raevol':
configure_option += " --with-raevol"
if comb['compilator'] == 'intel':
configure_option += " CXX=icc"
full_bin_directory = bin_directory + comb['experiment']+'_'+comb['compilator']+'_'+comb['parallel']+'_'+comb['blas']
try:
os.mkdir(full_bin_directory)
except:
for f in os.listdir(full_bin_directory):
os.remove(full_bin_directory + "/" + f)
p = Process(export+'cd '+src_directory+'; autoreconf; ./configure '+configure_option+'; make clean; make; cp src/aevol_run '+full_bin_directory+'/; cp src/aevol_create '+full_bin_directory+'/')
p.shell = True
#
p.run()
print p.stdout
comb_ok = True
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def workflow(self, comb):
"""
Compute one application launch
using a given parameter group
"""
comb_ok = False
try:
# Generate configuration file needed by MPI processes
logger.info("Generating assembly file...")
py = comb['cores'] / comb['px']
prepare = Process('cd %s && python %s %d %d %d %d %d %s app.lad' %
(self.workingPath, self.genLadScript, comb['datasize'], comb['datasize'],
comb['datasize'], comb['px'], py, comb['transposition']))
prepare.shell = True
prepare.run()
# Generate the MPI host file
mfile = self.generate_machine_file()
# Start L2C
lad = "./app.lad"
logger.info("Computing...")
res = Process("export OAR_JOB_KEY_FILE=~/.oar_key ; cd %s && l2c_loader -M,-machinefile,%s --mpi -c %d %s" % (self.workingPath, mfile, comb['cores'], lad))
res.shell = True
res.stdout_handlers.append(os.path.join(self.result_dir, slugify(comb) + '.out'))
res.stdout_handlers.append(sys.stdout)
res.stderr_handlers.append(os.path.join(self.result_dir, slugify(comb) + '.err'))
res.stderr_handlers.append(sys.stderr)
res.run()
if not res.ok:
logger.error('Bad L2C termination')
raise Exception('Bad L2C termination')
if len(res.stderr) > 0: # WARNING: when L2C cannot find the LAD file or something strange like this
logger.warning('Not empty error output')
# Clean configuration files
logger.info("Removing assembly files...")
res = Process('cd %s && rm -f app.lad*' % self.workingPath)
res.shell = True
res.run()
comb_ok = True
except Exception:
pass
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(style.host(slugify(comb)) + ' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(style.host(slugify(comb)) + ' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def workflow(self, comb, host, comb_dir):
""" """
comb_ok = False
thread_name = style.Thread(host.split('.')[0]) + ': '
logger.info(thread_name + 'Starting combination ' + slugify(comb))
try:
logger.info(thread_name + 'Generate conf file')
param_str = self.create_string(comb)
Remote(
"python /home/Work/sgcbntier/paasage_demo/xml_gen_execo.py --cb "
+ param_str, [host]).run()
logger.info(thread_name + 'Run code')
Remote(
"cd /home/Work/sgcbntier/paasage_demo/ ; python run_all_execo.py --cb %s"
% param_str, [host]).run()
logger.info(thread_name + 'Get results')
traceFile = "ntier_" + param_str
get_results = Get([host], [
"/home/Work/sgcbntier/paasage_demo/csv/REQTASK_" + traceFile +
".csv"
],
local_location=comb_dir).run()
for p in get_results.processes:
if not p.ok:
logger.error(
host +
': Unable to retrieve the files for combination %s',
slugify(comb))
exit()
comb_ok = True
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(thread_name + ': ' + slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(thread_name + ': ' + slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def workflow(self, comb):
"""
Compute one application launch
using a given parameter group
"""
comb_ok = False
try:
# Generate configuration file needed by MPI processes
logger.info("Generating assembly file...")
py = comb['cores'] / comb['px']
prepare = Process(
'cd %s && python %s %d %d %d %d %d %s app.lad' %
(self.workingPath, self.genLadScript, comb['datasize'],
comb['datasize'], comb['datasize'], comb['px'], py,
comb['transposition']))
prepare.shell = True
prepare.run()
# Generate the MPI host file
mfile = self.generate_machine_file()
# Start L2C
lad = "./app.lad"
logger.info("Computing...")
res = Process(
"export OAR_JOB_KEY_FILE=~/.oar_key ; cd %s && l2c_loader -M,-machinefile,%s --mpi -c %d %s"
% (self.workingPath, mfile, comb['cores'], lad))
res.shell = True
res.stdout_handlers.append(
os.path.join(self.result_dir,
slugify(comb) + '.out'))
res.stdout_handlers.append(sys.stdout)
res.stderr_handlers.append(
os.path.join(self.result_dir,
slugify(comb) + '.err'))
res.stderr_handlers.append(sys.stderr)
res.run()
if not res.ok:
logger.error('Bad L2C termination')
raise Exception('Bad L2C termination')
if len(
res.stderr
) > 0: # WARNING: when L2C cannot find the LAD file or something strange like this
logger.warning('Not empty error output')
# Clean configuration files
logger.info("Removing assembly files...")
res = Process('cd %s && rm -f app.lad*' % self.workingPath)
res.shell = True
res.run()
comb_ok = True
except Exception:
pass
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(style.host(slugify(comb)) + ' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(
style.host(slugify(comb)) + ' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def print_step(step_desc=None):
"""Print an on_magenta coloured string"""
logger.info(style.step('* ' + step_desc).ljust(45))
def print_step(step_desc=None):
"""Print an on_magenta coloured string"""
logger.info(style.step('* ' + step_desc).ljust(45))
def workflow(self, comb, host, comb_dir):
""" """
comb_ok = False
thread_name = style.Thread(str(host).split('.')[0]) + ': '
logger.info(thread_name + 'Starting combination ' + slugify(comb))
try:
self.export = "source ~/aevol_binary/intel/linux/mkl/bin/mklvars.sh intel64; "
bucketname = self.working_dir + '/raevol_5_mut_lat/' + slugify(
comb) + '/'
if os.path.isdir(bucketname) and os.path.exists(bucketname +
'/last_gener.txt'):
logger.info(thread_name + "Resuming AEVOL from NFS backup")
gen_file = open(bucketname + '/last_gener.txt', 'r')
last_gen = gen_file.read()
if int(last_gen) < 500000:
logger.info(thread_name + "Resuming AEVOL Run from " +
str(int(last_gen)))
rem = Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_binary/aevol/src/aevol_run -p 16'
+ ' -e 300000 -r ' + last_gen + ' >> aevol_run.log',
[host]).run()
if rem.ok:
comb_ok = True
else:
comb_ok = True
else:
Remote('mkdir -p ' + bucketname, [host]).run()
param_file = '/home/jorouzaudcornabas/aevol_binary/execo/mut_lat/param_tmpl.in'
logger.info(thread_name + 'Generate config file ' + param_file)
f_template = open(param_file)
fd, outfile = mkstemp(dir='/tmp/',
prefix=slugify(comb) + '_param')
f = os.fdopen(fd, 'w')
for line in f_template:
line = line.replace('SEED_NUMBER', str(comb['seed']))
line = line.replace('FUZZY_VERSION', str(comb['fuzzy']))
if comb['move']:
line = line.replace('FIRST_GAUSSIAN_MEDIAN', '0.25')
line = line.replace('THIRD_GAUSSIAN_MEDIAN', '0.65')
else:
line = line.replace('FIRST_GAUSSIAN_MEDIAN', '0.2')
line = line.replace('THIRD_GAUSSIAN_MEDIAN', '0.6')
line = line.replace('GAUSSIAN_HEIGHT', str(comb['height']))
f.write(line)
f_template.close()
f.close()
put_file = Put([host], [outfile],
remote_location=bucketname).run()
if not put_file.ok:
exit()
os.remove(outfile)
Remote(
'cd ' + bucketname + '; cp ' + outfile.split('/')[-1] +
' param.in', [host]).run()
logger.info(thread_name + "Launching AEVOL Create")
Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_diff_area/aevol/src/aevol_create > aevol_create.log',
[host]).run()
logger.info(thread_name + "Launching AEVOL Run")
rem = Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_diff_area/aevol/src/aevol_run -p 16 -n 500000 > aevol_run.log',
[host]).run()
if rem.ok:
comb_ok = True
logger.info(thread_name + 'Get results ' + comb_dir + "/" +
slugify(comb))
#try:
#os.mkdir(comb_dir + "/" + slugify(comb))
#except:
#logger.warning(thread_name +
#'%s already exists, removing existing files', comb_dir + "/" + slugify(comb))
#shutil.rmtree(comb_dir+ "/" + slugify(comb))
#try:
#os.mkdir(comb_dir + "/" + slugify(comb))
#except:
#logger.warning(thread_name +
#'%s already exists, recreating directory', comb_dir + "/" + slugify(comb))
#get_results = Get([host], [bucketname+ "/aevol_create.log", bucketname+ "/aevol_run.log", bucketname+'/stats/'],
#local_location=comb_dir + "/" + slugify(comb)).run()
#for p in get_results.processes:
#if not p.ok:
#logger.error(thread_name +
#': Unable to retrieve the files for combination %s',
#slugify(comb))
#exit()
finally:
if comb_ok:
self.sweeper.done(comb)
# shutil.rmtree(bucketname)
logger.info(thread_name + ': ' + slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(thread_name + ': ' + slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def workflow(self, comb, host, comb_dir):
""" """
comb_ok = False
thread_name = style.Thread(str(host).split('.')[0]) + ': '
logger.info(thread_name + 'Starting combination ' + slugify(comb))
if 'parapluie' in str(host):
nb_proc = 24
elif 'paranoia' in str(host):
nb_proc = 20
elif 'parapide' in str(host):
nb_proc = 8
else:
nb_proc = 16
try:
self.export = "source ~/aevol_binary/intel/linux/mkl/bin/mklvars.sh intel64; "
bucketname = self.working_dir + '/raevol_5_mut_lat/' + slugify(
comb) + '/'
logger.info(thread_name + "Killing other RAevol")
killa = Remote("killall -9 aevol_run", [host])
for killp in killa.processes:
killp.ignore_error = True
killa.run()
if os.path.isdir(bucketname) and os.path.exists(bucketname +
'/last_gener.txt'):
logger.info(thread_name + "Resuming AEVOL from NFS backup")
gen_file = open(bucketname + '/last_gener.txt', 'r')
last_gen = gen_file.read()
if int(last_gen) < 300000:
logger.info(thread_name + "Resuming AEVOL Run from " +
str(int(last_gen)))
rem = Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_binary/aevol/src/aevol_run -p '
+ str(nb_proc) + ' -e 300000 -r ' + last_gen +
' >> aevol_run.log', [host],
process_args={
'default_stdout_handler': False,
'default_stderr_handler': False
}).run()
if rem.ok:
comb_ok = True
else:
comb_ok = True
else:
Remote('mkdir -p ' + bucketname, [host]).run()
param_file = '/home/jorouzaudcornabas/aevol_binary/aevol/execo/mut_lat/param_tmpl.in'
logger.info(thread_name + 'Generate config file ' + param_file)
f_template = open(param_file)
fd, outfile = mkstemp(dir='/tmp/',
prefix=slugify(comb) + '_param')
f = os.fdopen(fd, 'w')
for line in f_template:
if 'CONFIGURE_ENVIRONMENT_VALUES' in line:
if comb['env'] == 'const':
line = line.replace('CONFIGURE_ENVIRONMENT_VALUES',
'NB_ENVIRONMENTS 1')
f.write(line)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.8 0.05' +
os.linesep)
elif comb['env'] == 'lat_3':
line = line.replace('CONFIGURE_ENVIRONMENT_VALUES',
'NB_ENVIRONMENTS 2')
f.write(line)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.8 0.05' +
os.linesep)
elif comb['env'] == 'lat_all':
line = line.replace('CONFIGURE_ENVIRONMENT_VALUES',
'NB_ENVIRONMENTS 16')
f.write(line)
#const
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 1 0.5 0.8 0.05' +
os.linesep)
# 1
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 2 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 3 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 3 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 3 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 3 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 4 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 4 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 4 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 4 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 5 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 5 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 5 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 5 0.5 0.85 0.05' +
os.linesep)
# 2
f.write('ENV_ADD_GAUSSIAN 6 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 6 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 6 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 6 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 7 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 7 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 7 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 7 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 8 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 8 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 8 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 8 0.5 0.85 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 9 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 9 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 9 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 9 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 10 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 10 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 10 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 10 0.5 0.85 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 11 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 11 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 11 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 11 0.5 0.85 0.05' +
os.linesep)
# 3
f.write('ENV_ADD_GAUSSIAN 12 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 12 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 12 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 12 0.5 0.8 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 13 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 13 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 13 0.5 0.6 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 13 0.5 0.85 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 14 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 14 0.5 0.4 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 14 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 14 0.5 0.85 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 15 0.5 0.2 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 15 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 15 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 15 0.5 0.85 0.05' +
os.linesep)
# 4
f.write('ENV_ADD_GAUSSIAN 16 0.5 0.25 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 16 0.5 0.45 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 16 0.5 0.65 0.05' +
os.linesep)
f.write('ENV_ADD_GAUSSIAN 16 0.5 0.85 0.05' +
os.linesep)
elif 'CONFIGURE_SIGNAL_VALUES' in line:
if comb['env'] == 'const':
line = line.replace('CONFIGURE_SIGNAL_VALUES', '')
f.write(line)
elif comb['env'] == 'lat_3':
line = line.replace(
'CONFIGURE_SIGNAL_VALUES',
'CREATE_SIGNAL h0 h0 h0 w0 m0 m1 m0 h1 h0 m0 h0 m1 h1 w0 h1 h0 m1 h1 m0 w0 w0 m0 w0 h0 h1 m1 w0 m0 m1 m0 w0 h1 h0 m0 h0 m1 h1 w0 h0 w0 m0 m1 m0 w0 h1 h0 w0 w0 h1'
)
f.write(line)
f.write('ENV_ADD_SIGNAL 2 1' + os.linesep)
elif comb['env'] == 'lat_all':
line = line.replace(
'CONFIGURE_SIGNAL_VALUES',
'CREATE_SIGNAL h0 w0 h1 m1 w0 h1 m0 h0 h1 w0 h0 m1 h1 h1 m1 m0 h0 w0 h1 m1 w0 h1 m0 h0 h1 w0 h0 m1 h1 h1 m1 m0 h1 m0 m1'
)
f.write(line)
f.write(
'CREATE_SIGNAL m0 h0 m1 h1 m1 w0 m0 m1 m0 h0 m1 h1 w0 h0 h0 h1 m1 m0 h1 w0 h1 h0 m1 h1 m0 w0 w0 m0 m1 w0 w0 h1 h0 w0 h1 h0 h0 m0 h0 w0 h0 m1 m0 w0 h1 w0 w0 h1 m0'
+ os.linesep)
f.write(
'CREATE_SIGNAL h0 h0 h0 w0 m0 m1 m0 h1 h0 m0 h0 m1 h1 w0 h1 h0 m1 h1 m0 w0 w0 m0 w0 h0 h1 m1 w0 m0 m1 m0 w0 h1 h0 m0 h0 m1 h1 w0 h0 w0 m0 m1 m0 w0 h1 h0 w0 w0 h1'
+ os.linesep)
f.write(
'CREATE_SIGNAL h1 h1 m0 w0 w0 h1 m1 h1 h1 m1 m0 w0 m1 m0 m0 w0 m0 h0 m0 h0 w0 h0 m0 h0 h1 m1 h0 h1 w0 h0 h1 m1 h1 m1 m0'
+ os.linesep)
f.write('ENV_ADD_SIGNAL 2 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 3 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 4 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 5 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 6 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 6 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 7 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 7 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 8 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 8 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 9 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 9 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 10 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 10 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 11 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 11 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 12 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 12 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 12 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 13 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 13 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 13 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 14 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 14 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 14 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 15 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 15 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 15 4' + os.linesep)
f.write('ENV_ADD_SIGNAL 16 1' + os.linesep)
f.write('ENV_ADD_SIGNAL 16 2' + os.linesep)
f.write('ENV_ADD_SIGNAL 16 3' + os.linesep)
f.write('ENV_ADD_SIGNAL 16 4' + os.linesep)
else:
line = line.replace('SEED_NUMBER', str(comb['seed']))
line = line.replace('MUTATION_RATE_VALUE',
comb['mutation'])
line = line.replace('SELECTION_PRESSURE',
str(comb['selection']))
f.write(line)
f_template.close()
f.close()
put_file = Put([host], [outfile],
remote_location=bucketname).run()
if not put_file.ok:
exit()
os.remove(outfile)
Remote(
'cd ' + bucketname + '; cp ' + outfile.split('/')[-1] +
' param.in; cp /home/jorouzaudcornabas/aevol_binary/aevol/execo/mut_lat/binding_matrix.rae .',
[host]).run()
logger.info(thread_name + "Launching AEVOL Create")
Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_binary/aevol/src/aevol_create > aevol_create.log',
[host],
process_args={
'default_stdout_handler': False,
'default_stderr_handler': False
}).run()
logger.info(thread_name + "Launching AEVOL Run")
rem = Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_binary/aevol/src/aevol_run -p '
+ str(nb_proc) + ' -n 300000 > aevol_run.log', [host],
process_args={
'default_stdout_handler': False,
'default_stderr_handler': False
}).run()
if rem.ok:
comb_ok = True
logger.info(thread_name + 'Get results ' + comb_dir + "/" +
slugify(comb))
#try:
#os.mkdir(comb_dir + "/" + slugify(comb))
#except:
#logger.warning(thread_name +
#'%s already exists, removing existing files', comb_dir + "/" + slugify(comb))
#shutil.rmtree(comb_dir+ "/" + slugify(comb))
#try:
#os.mkdir(comb_dir + "/" + slugify(comb))
#except:
#logger.warning(thread_name +
#'%s already exists, recreating directory', comb_dir + "/" + slugify(comb))
#get_results = Get([host], [bucketname+ "/aevol_create.log", bucketname+ "/aevol_run.log", bucketname+'/stats/'],
#local_location=comb_dir + "/" + slugify(comb)).run()
#for p in get_results.processes:
#if not p.ok:
#logger.error(thread_name +
#': Unable to retrieve the files for combination %s',
#slugify(comb))
#exit()
finally:
if comb_ok:
self.sweeper.done(comb)
# shutil.rmtree(bucketname)
logger.info(thread_name + ': ' + slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(thread_name + ': ' + slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))