/
easyvvuq_fusion_dask_tutorial.py
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easyvvuq_fusion_dask_tutorial.py
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#! /usr/bin/env python
"""
Run an EasyVVUQ campaign to analyze the sensitivity of the temperature
profile predicted by a simplified model of heat conduction in a
tokamak plasma.
This is done with PCE.
"""
import os
import easyvvuq as uq
import chaospy as cp
import pickle
import time
import numpy as np
import matplotlib
if not os.getenv("DISPLAY"): matplotlib.use('Agg')
import matplotlib.pylab as plt
import argparse
parser = argparse.ArgumentParser(description="EasyVVUQ applied (using DASK) to a cylindrical tokamak", epilog="",
formatter_class=argparse.RawTextHelpFormatter)
parser.add_argument("--local", "-l", action='store_true', default=False)
args=parser.parse_args()
if args.local:
print('Running locally')
from dask.distributed import Client, LocalCluster
else:
print('Running using SLURM')
from dask.distributed import Client
from dask_jobqueue import SLURMCluster
if __name__ == '__main__': ### This is needed if you are using a local cluster; see https://github.com/dask/dask/issues/3877#issuecomment-425692984
time_start = time.time()
# Set up a fresh campaign called "fusion_pce."
my_campaign = uq.CampaignDask(name='fusion_pce.')
# Define parameter space
params = {
"Qe_tot": {"type": "float", "min": 1.0e6, "max": 50.0e6, "default": 2e6},
"H0": {"type": "float", "min": 0.00, "max": 1.0, "default": 0},
"Hw": {"type": "float", "min": 0.01, "max": 100.0, "default": 0.1},
"Te_bc": {"type": "float", "min": 10.0, "max": 1000.0, "default": 100},
"chi": {"type": "float", "min": 0.01, "max": 100.0, "default": 1},
"a0": {"type": "float", "min": 0.2, "max": 10.0, "default": 1},
"R0": {"type": "float", "min": 0.5, "max": 20.0, "default": 3},
"E0": {"type": "float", "min": 1.0, "max": 10.0, "default": 1.5},
"b_pos": {"type": "float", "min": 0.95, "max": 0.99, "default": 0.98},
"b_height": {"type": "float", "min": 3e19, "max": 10e19, "default": 6e19},
"b_sol": {"type": "float", "min": 2e18, "max": 3e19, "default": 2e19},
"b_width": {"type": "float", "min": 0.005, "max": 0.025, "default": 0.01},
"b_slope": {"type": "float", "min": 0.0, "max": 0.05, "default": 0.01},
"nr": {"type": "integer", "min": 10, "max": 1000, "default": 100},
"dt": {"type": "float", "min": 1e-3, "max": 1e3, "default": 100},
"out_file": {"type": "string", "default": "output.csv"}
}
""" code snippet for writing the template file
str = ""
first = True
for k in params.keys():
if first:
str += '{"%s": "$%s"' % (k,k) ; first = False
else:
str += ', "%s": "$%s"' % (k,k)
str += '}'
print(str, file=open('fusion.template','w'))
"""
# Create an encoder, and decoder for PCE test app
encoder = uq.encoders.GenericEncoder(template_fname='fusion.template',
delimiter='$',
target_filename='fusion_in.json')
decoder = uq.decoders.SimpleCSV(target_filename="output.csv",
output_columns=["te", "ne", "rho", "rho_norm"],)
# Add the app (automatically set as current app)
my_campaign.add_app(name="fusion",
params=params,
encoder=encoder,
decoder=decoder)
time_end = time.time()
print('Time for phase 1 = %.3f' % (time_end-time_start))
time_start = time.time()
# Create the sampler
vary = {
"Qe_tot": cp.Uniform(1.8e6, 2.2e6),
"H0": cp.Uniform(0.0, 0.2),
"Hw": cp.Uniform(0.1, 0.5),
"chi": cp.Uniform(0.8, 1.2),
"Te_bc": cp.Uniform(80.0, 120.0)
}
""" other possible quantities to vary
"a0": cp.Uniform(0.9, 1.1),
"R0": cp.Uniform(2.7, 3.3),
"E0": cp.Uniform(1.4, 1.6),
"b_pos": cp.Uniform(0.95, 0.99),
"b_height": cp.Uniform(5e19, 7e19),
"b_sol": cp.Uniform(1e19, 3e19),
"b_width": cp.Uniform(0.015, 0.025),
"b_slope": cp.Uniform(0.005, 0.020)
"""
# Associate a sampler with the campaign
my_campaign.set_sampler(uq.sampling.PCESampler(vary=vary, polynomial_order=3))
# Will draw all (of the finite set of samples)
my_campaign.draw_samples()
print('Number of samples = %s' % my_campaign.get_active_sampler().count)
time_end = time.time()
print('Time for phase 2 = %.3f' % (time_end-time_start))
time_start = time.time()
my_campaign.populate_runs_dir()
time_end = time.time()
print('Time for phase 3 = %.3f' % (time_end-time_start))
time_start = time.time()
if args.local:
from dask.distributed import Client
client = Client(processes=True, threads_per_worker=1)
else:
cluster = SLURMCluster(job_extra=['--qos=p.tok.openmp.2h', '--mail-type=end', '--mail-user=dpc@rzg.mpg.de'], queue='p.tok.openmp', cores=8, memory='8 GB', processes=8)
cluster.scale(32)
print(cluster)
print(cluster.job_script())
client = Client(cluster)
print(client)
cwd = os.getcwd().replace(' ', '\ ') # deal with ' ' in the path
cmd = f"{cwd}/fusion_model.py fusion_in.json"
my_campaign.apply_for_each_run_dir(uq.actions.ExecuteLocal(cmd, interpret='python3'), client)
client.close()
# client.shutdown()
time_end = time.time()
print('Time for phase 4 = %.3f' % (time_end-time_start))
time_start = time.time()
my_campaign.collate()
time_end = time.time()
print('Time for phase 5 = %.3f' % (time_end-time_start))
time_start = time.time()
# Post-processing analysis
my_campaign.apply_analysis(uq.analysis.PCEAnalysis(sampler=my_campaign.get_active_sampler(), qoi_cols=["te", "ne", "rho", "rho_norm"]))
time_end = time.time()
print('Time for phase 6 = %.3f' % (time_end-time_start))
time_start = time.time()
# Get Descriptive Statistics
results = my_campaign.get_last_analysis()
rho = results.describe('rho', 'mean')
rho_norm = results.describe('rho_norm', 'mean')
time_end = time.time()
print('Time for phase 7 = %.3f' % (time_end-time_start))
time_start = time.time()
my_campaign.save_state("campaign_state.json")
###old_campaign = uq.Campaign(state_file="campaign_state.json", work_dir=".")
pickle.dump(results, open('fusion_results.pickle','bw'))
###saved_results = pickle.load(open('fusion_results.pickle','br'))
time_end = time.time()
print('Time for phase 8 = %.3f' % (time_end-time_start))
plt.ion()
# plot the calculated Te: mean, with std deviation, 10 and 90% and range
plt.figure()
plt.plot(rho, results.describe('te', 'mean'), 'b-', label='Mean')
plt.plot(rho, results.describe('te', 'mean')-results.describe('te', 'std'), 'b--', label='+1 std deviation')
plt.plot(rho, results.describe('te', 'mean')+results.describe('te', 'std'), 'b--')
plt.fill_between(rho, results.describe('te', 'mean')-results.describe('te', 'std'), results.describe('te', 'mean')+results.describe('te', 'std'), color='b', alpha=0.2)
plt.plot(rho, results.describe('te', '10%'), 'b:', label='10 and 90 percentiles')
plt.plot(rho, results.describe('te', '90%'), 'b:')
plt.fill_between(rho, results.describe('te', '10%'), results.describe('te', '90%'), color='b', alpha=0.1)
plt.fill_between(rho, results.describe('te', 'min'), results.describe('te', 'max'), color='b', alpha=0.05)
plt.legend(loc=0)
plt.xlabel('rho [m]')
plt.ylabel('Te [eV]')
plt.title(my_campaign.campaign_dir)
plt.savefig('Te.png')
# plot the first Sobol results
plt.figure()
for k in results.sobols_first()['te'].keys(): plt.plot(rho, results.sobols_first()['te'][k], label=k)
plt.legend(loc=0)
plt.xlabel('rho [m]')
plt.ylabel('sobols_first')
plt.title(my_campaign.campaign_dir)
plt.savefig('sobols_first.png')
# plot the second Sobol results
plt.figure()
for k1 in results.sobols_second()['te'].keys():
for k2 in results.sobols_second()['te'][k1].keys():
plt.plot(rho, results.sobols_second()['te'][k1][k2], label=k1+'/'+k2)
plt.legend(loc=0, ncol=2)
plt.xlabel('rho [m]')
plt.ylabel('sobols_second')
plt.title(my_campaign.campaign_dir+'\n');
plt.savefig('sobols_second.png')
# plot the total Sobol results
plt.figure()
for k in results.sobols_total()['te'].keys(): plt.plot(rho, results.sobols_total()['te'][k], label=k)
plt.legend(loc=0)
plt.xlabel('rho [m]')
plt.ylabel('sobols_total')
plt.title(my_campaign.campaign_dir)
plt.savefig('sobols_total.png')
# plot the distributions
plt.figure()
for i, D in enumerate(results.raw_data['output_distributions']['te']):
_Te = np.linspace(D.lower[0], D.upper[0], 101)
_DF = D.pdf(_Te)
plt.loglog(_Te, _DF, 'b-', alpha=0.25)
plt.loglog(results.describe('te', 'mean')[i], np.interp(results.describe('te', 'mean')[i], _Te, _DF), 'bo')
plt.loglog(results.describe('te', 'mean')[i]-results.describe('te', 'std')[i], np.interp(results.describe('te', 'mean')[i]-results.describe('te', 'std')[i], _Te, _DF), 'b*')
plt.loglog(results.describe('te', 'mean')[i]+results.describe('te', 'std')[i], np.interp(results.describe('te', 'mean')[i]+results.describe('te', 'std')[i], _Te, _DF), 'b*')
plt.loglog(results.describe('te', '10%')[i], np.interp(results.describe('te', '10%')[i], _Te, _DF), 'b+')
plt.loglog(results.describe('te', '90%')[i], np.interp(results.describe('te', '90%')[i], _Te, _DF), 'b+')
plt.xlabel('Te')
plt.ylabel('distribution function')
plt.savefig('distribution_functions.png')