diff --git a/experiments/QA_SVM/quantum_SVM.py b/experiments/QA_SVM/quantum_SVM.py
new file mode 100644
index 0000000000000000000000000000000000000000..693bc1261a109e4c8980f1842ebc7037b96a6412
--- /dev/null
+++ b/experiments/QA_SVM/quantum_SVM.py
@@ -0,0 +1,483 @@
+# Created by Dennis Willsch (d.willsch@fz-juelich.de)
+# Modified by Gabriele Cavallaro (g.cavallaro@fz-juelich.de)
+# and Madita Willsch (m.willsch@fz-juelich.de)
+
+import os
+import sys
+import re
+import gc
+import numpy as np
+import numpy.lib.recfunctions as rfn
+import matplotlib.pyplot as plt
+import matplotlib.colors as cols
+from utils_updated import *
+
+import shutil
+import pickle
+import numpy.lib.recfunctions as rfn
+from dwave.system.samplers import DWaveSampler
+from dwave.system.composites import EmbeddingComposite
+from dwave.system.composites import LazyFixedEmbeddingComposite
+from dimod import BinaryQuadraticModel
+
+def gen_svm_qubos(data,label,B,K,xi,gamma,E,path):
+
+ N = len(data)
+
+ if not os.path.isfile(path+'Q.npy'):
+ Q = np.zeros((K*N,K*N))
+
+ print(f'Creating the QUBO of size {Q.shape}')
+ for n in range(N): # not optimized: size will not be so large and this way its more easily verifyable
+ for m in range(N):
+ for k in range(K):
+ for j in range(K):
+ Q[K*n+k,K*m+j] = .5 * B**(k+j-2*E) * label[n] * label[m] * (kernel(data[n], data[m], gamma) + xi)
+ if n == m and k == j:
+ Q[K*n+k,K*m+j] += - B**(k-E)
+
+
+ Q = np.triu(Q) + np.tril(Q,-1).T # turn the symmetric matrix into upper triangular
+ else:
+ Q = np.load(path+'Q.npy')
+ print(f'Extracting nodes and couplers')
+ qubo_nodes = np.asarray([[n, n, Q[n,n]] for n in range(len(Q))]) # if not np.isclose(Q[n,n],0)]) NOTE: removed due to variable order!
+ qubo_couplers = np.asarray([[n, m, Q[n,m]] for n in range(len(Q)) for m in range(n+1,len(Q)) if not np.isclose(Q[n,m],0)])
+ qubo_couplers = qubo_couplers[np.argsort(-np.abs(qubo_couplers[:,2]))]
+
+
+ print(f'Saving {len(qubo_nodes)} nodes and {len(qubo_couplers)} couplers for {path}')
+ os.makedirs(path, exist_ok=True)
+ np.save(path+'Q.npy', Q)
+ np.savetxt(path+'qubo_nodes.dat', qubo_nodes, fmt='%g', delimiter='\t')
+ np.savetxt(path+'qubo_couplers.dat', qubo_couplers, fmt='%g', delimiter='\t')
+
+ return
+
+
+def dwave_run_embedding(data,label,path_in,annealing_times,chain_strengths,em_id,solver='Advantage_system1.1'): #em_id is a label for the embedding. In this way, it is possible to re-run a previously computed and stored embedding with e.g. different chain strength and/or annealing time
+
+ MAXRESULTS = 20 # NOTE: to save space only 20 best results
+ match = re.search('run_([^/]*)_B=(.*)_K=(.*)_xi=(.*)_E=(.*)_gamma=([^/]*)', path_in)
+
+ data_key = match.group(1)
+ B = int(match.group(2))
+ K = int(match.group(3))
+ xi = float(match.group(4))
+ gamma = float(match.group(6))
+ E = int(match.group(5))
+
+ path = path_in+ ('/' if path_in[-1] != '/' else '')
+ qubo_couplers = np.loadtxt(path+'qubo_couplers.dat')
+ qubo_nodes = np.loadtxt(path+'qubo_nodes.dat')
+ qubo_nodes = np.array([[i,i,(qubo_nodes[qubo_nodes[:,0]==i,2][0] if i in qubo_nodes[:,0] else 0.)] for i in np.arange(np.concatenate((qubo_nodes,qubo_couplers))[:,[0,1]].max()+1)]) # to make sure every (i,i) occurs in the qubo in increasing order such that the variable order in BinaryQuadraticModel is consistent (see locate wrongenergies-* github issue)
+ maxcouplers = len(qubo_couplers) ## POSSIBLE INPUT if len(sys.argv) <= 2 else int(sys.argv[2])
+
+ if not 'train' in data_key:
+ raise Exception(f'careful: datakey={data_key} => youre trying to train on a validation / test set!')
+
+ couplerslist = [min(7500,maxcouplers)] # The 7500 here is more or less arbitrary and may need to be adjusted. Just to be sure that the number of couplers is not larger than the number of physical couplers (EmbeddingComposite does not seem to check for this)
+ for trycouplers in [5000, 2500, 2000, 1800, 1600, 1400, 1200, 1000, 500]:
+ if maxcouplers > trycouplers:
+ couplerslist += [trycouplers]
+
+
+ sampler = LazyFixedEmbeddingComposite(DWaveSampler(solver=solver)) # use the same embedding for all chain strengths and annealing times
+ for n in range(0,len(chain_strengths)):
+ for m in range(0,len(annealing_times)):
+ if n==0 and m==0:
+ for couplers in couplerslist: # try to reduce as little couplers as necessary to find an embedding
+ Q = { (q[0], q[1]): q[2] for q in np.vstack((qubo_nodes, qubo_couplers[:couplers])) }
+ maxstrength=np.max( np.abs( list( Q.values() ) ) )
+ pathsub = path + f'result_couplers={couplers}/'
+ os.makedirs(pathsub, exist_ok=True)
+ embedding_file_name=pathsub+f'embedding_id{em_id}'
+ if os.path.isfile(embedding_file_name):
+ embedding_file=open(embedding_file_name,'r')
+ embedding_data=eval(embedding_file.read())
+ embedding_file.close()
+ sampler._fix_embedding(embedding_data)
+ print(f'running {pathsub} with {len(qubo_nodes)} nodes and {couplers} couplers for embedding {em_id}')
+
+ ordering = np.array(list(BinaryQuadraticModel.from_qubo(Q)))
+ if not (ordering == np.arange(len(ordering),dtype=ordering.dtype)).all():
+ print(f'WARNING: variables are not correctly ordered! path={path} ordering={ordering}')
+
+ try:
+ print(f'Running chain strength {chain_strengths[n]} and annealing time {annealing_times[m]}\n')
+ response = sampler.sample_qubo(Q, num_reads=5000, annealing_time=annealing_times[0], chain_strength=chain_strengths[0]*maxstrength)
+ if not os.path.isfile(embedding_file_name):
+ embedding_file=open(embedding_file_name,'w')
+ print('Embedding found. Saving...')
+ embedding_file.write(repr(sampler.embedding))
+ embedding_file.close()
+
+ except ValueError as v:
+ print(f' -- no embedding found, removing {pathsub} and trying less couplers')
+ shutil.rmtree(pathsub)
+ sampler = LazyFixedEmbeddingComposite(DWaveSampler(solver=solver))
+ continue
+ break
+ else:
+ print(f'Running chain strength {chain_strengths[n]} and annealing time {annealing_times[m]}')
+ response = sampler.sample_qubo(Q, num_reads=5000, annealing_time=annealing_times[m], chain_strength=chain_strengths[n]*maxstrength)
+
+ pathsub_ext=pathsub+f'embedding{em_id}_rcs{chain_strengths[n]}_ta{annealing_times[m]}_'
+ save_json(pathsub_ext+'info.json', response.info) # contains response.info
+ #NOTE left out: pickle.dump(response, open(pathsub+'response.pkl','wb')) # contains full response incl. response.record etc; can be loaded with pickle.load(open('response.pkl','rb'))
+
+ samples = np.array([''.join(map(str,sample)) for sample in response.record['sample']]) # NOTE: it would be safer to use the labeling from record.data() for the qubit variable order
+ unique_samples, unique_idx, unique_counts = np.unique(samples, return_index=True, return_counts=True) # unfortunately, num_occurrences seems not to be added up after unembedding
+ unique_records = response.record[unique_idx]
+ result = rfn.merge_arrays((unique_samples, unique_records['energy'], unique_counts, unique_records['chain_break_fraction'])) # see comment on chain_strength above
+ result = result[np.argsort(result['f1'])]
+ np.savetxt(pathsub_ext+'result.dat', result[:MAXRESULTS], fmt='%s', delimiter='\t', header='\t'.join(response.record.dtype.names), comments='') # load with np.genfromtxt(..., dtype=['<U2000',float,int,float], names=True, encoding=None)
+
+ alphas = np.array([decode(sample,B,K,E) for sample in result['f0'][:MAXRESULTS]])
+ np.save(pathsub_ext+f'alphas.npy', alphas)
+ gc.collect()
+
+ return pathsub
+
+
+def eval_run_trainaccuracy(path_in):
+
+ regex = 'run([^/]*)_B=(.*)_K=(.*)_xi=(.*)_E=(.*)_gamma=([^/]*)/result_couplers.*/?$'
+ match = re.search(regex, path_in)
+
+ path = path_in + ('/' if path_in[-1] != '/' else '')
+ data_key = match.group(1)
+ B = int(match.group(2))
+ K = int(match.group(3))
+ xi = float(match.group(4))
+ gamma = float(match.group(6))
+ E = int(match.group(5))
+ data,label = loaddataset(data_key)
+
+ alphas_file = path+f'alphas{data_key}_gamma={gamma}.npy'
+ if not os.path.isfile(alphas_file):
+ print('result '+alphas_file+' doesnt exist, exiting')
+ sys.exit(-1)
+
+ alphas = np.atleast_2d(np.load(alphas_file))
+ nalphas = len(alphas)
+ assert len(data) == alphas.shape[1], "alphas do not seem to be for the right data set?)"
+
+ result = np.genfromtxt(path+'result.dat', dtype=['<U2000',float,int,float], names=True, encoding=None, max_rows=nalphas)
+
+ Cs = [100, 10, (B**np.arange(K-E)).sum(), 1.5]
+ evaluation = np.zeros(nalphas, dtype=[('sum_antn',float)]+[(f'acc(C={C})',float) for C in Cs])
+
+ for n,alphas_n in enumerate(alphas):
+ evaluation[n]['sum_antn'] = (label * alphas_n).sum()
+ for j,field in enumerate(evaluation.dtype.names[1:]):
+ b = eval_offset_avg(alphas_n, data, label, gamma, Cs[j]) # NOTE: this is NAN if no support vectors were found, see TODO file
+ label_predicted = np.sign(eval_classifier(data, alphas_n, data, label, gamma, b)) # NOTE: this is only train accuracy! (see eval_result_roc*)
+ evaluation[n][field] = (label == label_predicted).sum() / len(label)
+
+ result_evaluated = rfn.merge_arrays((result,evaluation), flatten=True)
+ fmt = '%s\t%.3f\t%d\t%.3f' + '\t%.3f'*len(evaluation.dtype.names)
+ #NOTE: left out
+ # np.savetxt(path+'result_evaluated.dat', result_evaluated, fmt=fmt, delimiter='\t', header='\t'.join(result_evaluated.dtype.names), comments='') # load with np.genfromtxt(..., dtype=['<U2000',float,int,float,float,float,float,float], names=True, encoding=None)
+
+ print(result_evaluated.dtype.names)
+ print(result_evaluated)
+
+
+
+def eval_run_rocpr_curves(path_data_key,path_in,plotoption):
+
+ regex = 'run([^/]*)_B=(.*)_K=(.*)_xi=(.*)_E=(.*)_gamma=([^/]*)/result_couplers.*/?$'
+ match = re.search(regex, path_in)
+
+ path = path_in + ('/' if path_in[-1] != '/' else '')
+ data_key = match.group(1)
+ B = int(match.group(2))
+ K = int(match.group(3))
+ xi = float(match.group(4))
+ gamma = float(match.group(6))
+ E = int(match.group(5))
+ data,label = loaddataset(path_data_key+data_key)
+
+ dwavesolutionidx=0
+ C=(B**np.arange(K-E)).sum()
+
+ if 'calibtrain' in data_key:
+ testname = 'Validation'
+ datatest,labeltest = loaddataset(path_data_key+data_key.replace('calibtrain','calibval'))
+ else:
+ print('be careful: this does not use the aggregated bagging classifier but only the simple one as in calibration')
+ testname = 'Test'
+ datatest,labeltest = loaddataset(re.sub('train(?:set)?[0-9]*(?:bag)[0-9]*','test',data_key))
+
+ alphas_file = path+f'alphas{data_key}_gamma={gamma}.npy'
+ if not os.path.isfile(alphas_file):
+ print('result '+alphas_file+' doesnt exist, exiting')
+ sys.exit(-1)
+
+ alphas = np.atleast_2d(np.load(alphas_file))
+ nalphas = len(alphas)
+ assert len(data) == alphas.shape[1], "alphas do not seem to be for the right data set?)"
+
+ print('idx \tsum_antn\ttrainacc\ttrainauroc\ttrainauprc\ttestacc \ttestauroc\ttestauprc')
+
+ trainacc_all=np.zeros([nalphas])
+ trainauroc_all=np.zeros([nalphas])
+ trainauprc_all=np.zeros([nalphas])
+
+ testacc_all=np.zeros([nalphas])
+ testauroc_all=np.zeros([nalphas])
+ testauprc_all=np.zeros([nalphas])
+
+ for i in range(nalphas):
+ alphas_n = alphas[i]
+ b = eval_offset_avg(alphas_n, data, label, gamma, C) # NOTE: this is NAN if no support vectors were found, see TODO file
+ score = eval_classifier(data, alphas_n, data, label, gamma, b)
+ scoretest = eval_classifier(datatest, alphas_n, data, label, gamma, b)
+ trainacc,trainauroc,trainauprc = eval_acc_auroc_auprc(label,score)
+ testacc,testauroc,testauprc = eval_acc_auroc_auprc(labeltest,scoretest)
+
+ trainacc_all[i]=trainacc
+ trainauroc_all[i]=trainauroc
+ trainauprc_all[i]=trainauprc
+ testacc_all[i]=testacc
+ testauroc_all[i]=testauroc
+ testauprc_all[i]=testauprc
+
+ print(f'{i}\t{(label*alphas_n).sum():8.4f}\t{trainacc:8.4f}\t{trainauroc:8.4f}\t{trainauprc:8.4f}\t{testacc:8.4f}\t{testauroc:8.4f}\t{testauprc:8.4f}')
+
+
+ # plot code starts here
+ if plotoption != 'noplotsave':
+ alphas_n = alphas[dwavesolutionidx] # plot only the requested
+ b = eval_offset_avg(alphas_n, data, label, gamma, C) # NOTE: this is NAN if no support vectors were found, see TODO file
+ score = eval_classifier(data, alphas_n, data, label, gamma, b)
+ scoretest = eval_classifier(datatest, alphas_n, data, label, gamma, b)
+
+ # roc curve
+ plt.figure(figsize=(6.4,3.2))
+ plt.subplot(1,2,1)
+ plt.subplots_adjust(top=.95, right=.95, bottom=.15, wspace=.3)
+ fpr, tpr, thresholds = roc_curve(labeltest, scoretest)
+ auroc = roc_auc_score(labeltest, scoretest)
+ plt.plot(fpr, tpr, label='AUROC=%0.3f' % auroc, color='g')
+ plt.fill_between(fpr, tpr, alpha=0.2, color='g', step='post')
+ plt.plot([0, 1], [0, 1], 'k--')
+ plt.xlim([0.0, 1.0])
+ plt.ylim([0.0, 1.0])
+ plt.xlabel('False Positive Rate')
+ plt.ylabel('True Positive Rate')
+ #plt.title('Receiver Operating Curve')
+ plt.legend(loc="lower right")
+ # pr curve
+ plt.subplot(1,2,2)
+ precision, recall, _ = precision_recall_curve(labeltest, scoretest)
+ auprc = auc(recall, precision)
+ plt.step(recall, precision, color='g', where='post',
+ label='AUPRC=%0.3f' % auprc)
+ plt.fill_between(recall, precision, alpha=0.2, color='g', step='post')
+ plt.xlabel('Recall')
+ plt.ylabel('Precision')
+ plt.ylim([0.0, 1.0])
+ plt.xlim([0.0, 1.0])
+ #plt.title('PR curve')
+ plt.legend(loc="lower right")
+
+ # save the data for gnuplot
+ savename = f'{path.replace("/","_")}{dwavesolutionidx}'
+ #with open('results/rocpr_curves/'+savename,'w') as out:
+ with open(path_in+savename,'w') as out:
+ out.write(f'AUROC\t{auroc:0.3f}\t# ROC:FPR,TPR\n')
+ assert len(fpr) == len(tpr)
+ for i in range(len(fpr)):
+ out.write(f'{fpr[i]}\t{tpr[i]}\n')
+ out.write(f'\n\nAUPRC\t{auprc:0.3f}\t# PRC:Recall,Precision\n')
+ assert len(recall) == len(precision)
+ for i in range(len(recall)):
+ out.write(f'{recall[i]}\t{precision[i]}\n')
+ print(f'saved data for {savename}')
+
+ if plotoption == 'saveplot':
+ savefigname = path_in+savename+'.pdf'
+ plt.savefig(savefigname)
+ print(f'saved as {savefigname}')
+ else:
+ plt.show()
+
+
+ return np.average(trainacc_all), np.average(trainauroc_all), np.average(trainauprc_all) ,np.average(testacc_all), np.average(testauroc_all), np.average(testauprc_all)
+
+
+# previously we used AUROC and AUPRC as metrics, now replaced by F1 score -> this function here is maybe not necessary anymore?
+# returns the average of the results of all single classifiers and the result of the averaged classifer (for train and validation data)
+# if validation = False, the "validation" results are all 0 (except energy which is only computed and returned for train data anyway)
+# showplot option only works for toy model data, thus False by default
+def eval_run_rocpr_curves_embedding_train(path_data_key,path_in,cs,ta,idx,max_alphas=0,validation=False,showplot=False):
+
+ regex = '.*run([^/]*)_B=(.*)_K=(.*)_xi=(.*)_E=(.*)_gamma=([^/]*)/result_couplers.*/?$'
+ match = re.search(regex, path_in)
+
+ path = path_in + ('/' if path_in[-1] != '/' else '')
+ data_key = match.group(1)
+ B = int(match.group(2))
+ K = int(match.group(3))
+ xi = float(match.group(4))
+ gamma = float(match.group(6))
+ E = int(match.group(5))
+ data,label = loaddataset(path_data_key+data_key)
+ if validation:
+ data_val,label_val = loaddataset(path_data_key+data_key.replace('calibtrain','calibval'))
+
+ dwavesolutionidx=0
+ C=(B**np.arange(K-E)).sum()
+
+ alphas_file = path+f'embedding{idx}_rcs{cs}_ta{ta}_alphas{data_key}_gamma={gamma}.npy'
+ energy_file = path+f'embedding{idx}_rcs{cs}_ta{ta}_result.dat'
+ energy_file_dat=np.genfromtxt(energy_file);
+ energies=np.transpose(energy_file_dat[1:])[1]
+ if not os.path.isfile(alphas_file):
+ print('result '+alphas_file+' doesnt exist, exiting')
+ sys.exit(-1)
+
+ alphas = list(np.atleast_2d(np.load(alphas_file)))
+ for i in reversed(range(len(alphas))):
+ if all(np.logical_or(np.isclose(alphas[i],0),np.isclose(alphas[i],C))) or np.isclose(np.sum(alphas[i] * (C-alphas[i])),0): #remove cases where no support vectors are found (all alpha=0 or only slack variables all alpha=0 or alpha=C) -> numerical recipes Eq. 16.5.24
+ print(f'Deleting alphas[{i}].')
+ del alphas[i]
+ alphas = np.array(alphas)
+ if max_alphas == 0 or max_alphas > len(alphas):
+ nalphas = len(alphas)
+ else:
+ nalphas = max_alphas
+ assert len(data) == alphas.shape[1], "alphas do not seem to be for the right data set?)"
+
+ trainacc_all=np.zeros([nalphas])
+ trainauroc_all=np.zeros([nalphas])
+ trainauprc_all=np.zeros([nalphas])
+ testacc_all=np.zeros([nalphas])
+ testauroc_all=np.zeros([nalphas])
+ testauprc_all=np.zeros([nalphas])
+ alphas_avg = np.zeros(len(alphas[0]))
+ energies2 = np.zeros([nalphas])
+
+ for i in range(nalphas):
+ alphas_n = alphas[i]
+ alphas_avg += alphas_n
+ b = eval_offset_avg(alphas_n, data, label, gamma, C) # NOTE: this is NAN if no support vectors were found, see TODO file
+ score = eval_classifier(data, alphas_n, data, label, gamma, b)
+ trainacc,trainauroc,trainauprc = eval_acc_auroc_auprc(label,score)
+
+ trainacc_all[i] = trainacc
+ trainauroc_all[i] = trainauroc
+ trainauprc_all[i] = trainauprc
+ energies2[i] = compute_energy(alphas_n, data, label, gamma, xi)
+
+ if validation:
+ scoretest = eval_classifier(data_val, alphas_n, data, label, gamma, b)
+ testacc,testauroc,testauprc = eval_acc_auroc_auprc(label_val,scoretest)
+
+ testacc_all[i] = testacc
+ testauroc_all[i] = testauroc
+ testauprc_all[i] = testauprc
+
+ alphas_avg = alphas_avg/nalphas
+ b = eval_offset_avg(alphas_avg, data, label, gamma, C) # NOTE: this is NAN if no support vectors were found, see TODO file
+ score = eval_classifier(data, alphas_avg, data, label, gamma, b)
+ trainacc,trainauroc,trainauprc = eval_acc_auroc_auprc(label,score)
+ testacc = 0
+ testauroc = 0
+ testauprc = 0
+ if validation:
+ scoretest = eval_classifier(data_val, alphas_avg, data, label, gamma, b)
+ testacc,testauroc,testauprc = eval_acc_auroc_auprc(label_val,scoretest)
+ energy = compute_energy(alphas_avg, data, label, gamma,xi)
+ print(alphas_avg)
+
+ if showplot:
+ if validation:
+ plot_result_val(alphas_avg, data, label, gamma, C, [-4,4], title=f'ta = {ta}, rcs = {cs:0.1f}, emb = {idx}, energy {energy:0.4f},\nacc = {trainacc:0.4f}, auroc = {trainauroc:0.4f}, auprc = {trainauprc:0.4f},\ntestacc = {testacc:0.4f}, testauroc = {testauroc:0.4f}, testauprc = {testauprc:0.4f}', filled=True, validation=True, data_val=data_val, label_val=label_val)
+ else:
+ plot_result_val(alphas_avg, data, label, gamma, C, [-4,4], title=f'ta = {ta}, rcs = {cs:0.1f}, emb = {idx}, energy {energy:0.4f},\nacc = {trainacc:0.4f}, auroc = {trainauroc:0.4f}, auprc = {trainauprc:0.4f}', filled=True)
+
+ return np.average(trainacc_all), np.average(trainauroc_all), np.average(trainauprc_all), trainacc, trainauroc, trainauprc, np.average(energies2), energy, np.average(testacc_all), np.average(testauroc_all), np.average(testauprc_all), testacc, testauroc, testauprc
+
+def compute_energy(alphas, data, label, gamma, xi):
+ energy = 0
+ sv = alphas*label
+ for n in range(len(data)):
+ for m in range(len(data)):
+ energy += 0.5*sv[n]*sv[m]*kernel(data[n],data[m],gamma)
+ energy -= np.sum(alphas)
+ energy += 0.5*xi*(np.sum(sv))**2 # NOTE: the 1/2 here is only there because we have it in the svm paper this way
+ return energy
+
+# for plotting the toy model data with classifier and support vectors
+def plot_result(alphas, data, label, gamma, C, xylim=[-2.0, 2.0], notitle=False, filled=False, title = "", save=""):
+ b = eval_offset_avg(alphas, data, label, gamma, C)
+ result = np.sign(eval_classifier(data, alphas, data, label, gamma, b))
+ w = np.array([0.0,0.0])
+ for l in range(0,len(label)):
+ w += alphas[l] * label[l] * data[l]
+ len_w = np.sqrt(w[0]**2+w[1]**2)
+ w = w/len_w
+ print(f'w = ( {w[0]} , {w[1]} )')
+ w = -b/len_w*w
+ print(f'b = {b}')
+
+ xsample = np.arange(xylim[0], xylim[1]+.01, .05)
+ x1grid, x2grid = np.meshgrid(xsample, xsample)
+ X = np.vstack((x1grid.ravel(), x2grid.ravel())).T # ...xD for kernel contraction
+ FX = eval_classifier(X, alphas, data, label, gamma, b).reshape(len(xsample), len(xsample))
+
+ #plt.pcolor(x1grid, x2grid, FX, cmap='coolwarm')
+ plt.contourf(x1grid, x2grid, FX, [-5.,-4.5,-4.,-3.5,-3.,-2.5,-2.,-1.5,-1.,-0.5,0.,0.5,1.,1.5,2.,2.5,3.,3.5,4.,4.5,5.], cmap='seismic', extend='both',alpha=0.8)
+ plt.contour(x1grid, x2grid, FX, [0.], linewidths=3, colors='black')
+ plt.arrow(0,0,w[0],w[1], linewidth=2, length_includes_head=True)
+ ax=plt.gca()
+ ax.set_aspect('equal')
+ if not title == "":
+ plt.title(title)
+ if not notitle:
+ plt.title('acc = %g' % ((result == label).sum() / len(label)))
+
+ if not filled:
+ plt.scatter(data[result==1][:,0], data[result==1][:,1], c='r', marker=(8,2,0), linewidth=0.5)
+ plt.scatter(data[result!=1][:,0], data[result!=1][:,1], c='b', marker='+', linewidth=1)
+ plt.scatter(data[label==1][:,0], data[label==1][:,1], edgecolors='r', marker='s', linewidth=0.5, facecolors='none')
+ plt.scatter(data[label!=1][:,0], data[label!=1][:,1], edgecolors='b', marker='o', linewidth=1, facecolors='none')
+ else:
+ plt.scatter(data[label==1][:,0], data[label==1][:,1], edgecolors=cols.CSS4_COLORS['darkorange'], marker='s', linewidth=1, facecolors=cols.CSS4_COLORS['red'])
+ plt.scatter(data[label!=1][:,0], data[label!=1][:,1], edgecolors=cols.CSS4_COLORS['deepskyblue'], marker='D', linewidth=1, facecolors=cols.CSS4_COLORS['blue'])
+ plt.scatter(data[alphas>0][:,0], data[alphas>0][:,1], edgecolors='k', marker='o', linewidth=2, facecolors='none')
+ plt.scatter(data[alphas==C][:,0], data[alphas==C][:,1], edgecolors='w', marker='o', linewidth=2, facecolors='none')
+
+ plt.xlim(*xylim)
+ plt.ylim(*xylim)
+ plt.show()
+
+ if not save == "":
+ plt.savefig(save+".svg")
+
+def predict(datatest,data,label,alphas,path_in):
+
+ regex = 'run([^/]*)_B=(.*)_K=(.*)_xi=(.*)_E=(.*)_gamma=([^/]*)/result_couplers.*/?$'
+ match = re.search(regex, path_in)
+
+ path = path_in + ('/' if path_in[-1] != '/' else '')
+ data_key = match.group(1)
+ B = int(match.group(2))
+ K = int(match.group(3))
+ xi = float(match.group(4))
+ gamma = float(match.group(6))
+ E = int(match.group(5))
+
+ C=(B**np.arange(K-E)).sum()
+
+ # Compute the mean of the alphas
+ alphas_avg=np.mean(alphas,axis=0)
+
+ b = eval_offset_avg(alphas_avg, data, label, gamma, C) # NOTE: this is NAN if no support vectors were found, see TODO file
+
+ scoretest = eval_classifier(datatest, alphas_avg, data, label, gamma, b)
+
+ return scoretest