From b14c581ca5fdab47d7e1c0b688331368cb7f29d0 Mon Sep 17 00:00:00 2001
From: David Luevano <55825613+luevano@users.noreply.github.com>
Date: Mon, 23 Dec 2019 13:11:12 -0700
Subject: Refactor ml code

---
 lj_matrix/do_ml.py | 104 +++++++++++++++++++++++++++++++++++++++++++++++------
 1 file changed, 93 insertions(+), 11 deletions(-)

(limited to 'lj_matrix')

diff --git a/lj_matrix/do_ml.py b/lj_matrix/do_ml.py
index bb954a0ae..ac044cfb3 100644
--- a/lj_matrix/do_ml.py
+++ b/lj_matrix/do_ml.py
@@ -22,19 +22,22 @@ SOFTWARE.
 """
 import time
 import numpy as np
+from multiprocessing import Process, Pipe
 from lj_matrix.misc import printc
 from lj_matrix.gauss_kernel import gauss_kernel
 from lj_matrix.cholesky_solve import cholesky_solve
-
-
-def do_ml(desc_data,
-          energy_data,
-          training_size,
-          desc_type=None,
-          pipe=None,
-          test_size=None,
-          sigma=1000.0,
-          show_msgs=True):
+from lj_matrix.read_qm7_data import read_qm7_data
+from lj_matrix.parallel_create_matrices import parallel_create_matrices
+
+
+def ml(desc_data,
+       energy_data,
+       training_size,
+       desc_type=None,
+       pipe=None,
+       test_size=None,
+       sigma=1000.0,
+       show_msgs=True):
     """
     Does the ML methodology.
     desc_data: descriptor (or representation) data.
@@ -51,6 +54,7 @@ def do_ml(desc_data,
     Also, training is done with the first part of the data and
     testing with the ending part of the data.
     """
+    tic = time.perf_counter()
     # Initial calculations for later use.
     d_len = len(desc_data)
     e_len = len(energy_data)
@@ -72,7 +76,6 @@ def do_ml(desc_data,
         if test_size > 1500:
             test_size = 1500
 
-    tic = time.perf_counter()
     if show_msgs:
         printc('{} ML started.'.format(desc_type), 'GREEN')
         printc('\tTraining size: {}'.format(training_size), 'CYAN')
@@ -106,3 +109,82 @@ def do_ml(desc_data,
         pipe.send([desc_type, training_size, test_size, sigma, mae, tictoc])
 
     return mae, tictoc
+
+
+# Test
+def do_ml(min_training_size,
+          max_training_size=None,
+          training_increment_size=None,
+          ljm_sigma=1.0,
+          ljm_epsilon=1.0,
+          save_benchmarks=False):
+    """
+    Main function that does the whole ML process.
+    min_training_size: minimum training size.
+    max_training_size: maximum training size.
+    training_increment_size: training increment size.
+    ljm_sigma: sigma value for lj matrix.
+    ljm_epsilon: epsilon value for lj matrix.
+    save_benchmarks: if benchmarks should be saved.
+    """
+    # Initialization time.
+    init_time = time.perf_counter()
+
+    # Data reading.
+    molecules, nuclear_charge, energy_pbe0, energy_delta = read_qm7_data()
+
+    # Matrices calculation.
+    cm_data, ljm_data = parallel_create_matrices(molecules,
+                                                 nuclear_charge,
+                                                 ljm_sigma,
+                                                 ljm_epsilon)
+
+    # ML calculation.
+    procs = []
+    cm_pipes = []
+    ljm_pipes = []
+    for i in range(min_training_size,
+                   max_training_size + 1,
+                   training_increment_size):
+        cm_recv, cm_send = Pipe(False)
+        p1 = Process(target=ml,
+                     args=(cm_data, energy_pbe0, i, 'CM', cm_send))
+        procs.append(p1)
+        cm_pipes.append(cm_recv)
+        p1.start()
+
+        ljm_recv, ljm_send = Pipe(False)
+        p2 = Process(target=ml,
+                     args=(ljm_data, energy_pbe0, i, 'L-JM', ljm_send))
+        procs.append(p2)
+        ljm_pipes.append(ljm_recv)
+        p2.start()
+
+    cm_bench_results = []
+    ljm_bench_results = []
+    for cd_pipe, ljd_pipe in zip(cm_pipes, ljm_pipes):
+        cm_bench_results.append(cd_pipe.recv())
+        ljm_bench_results.append(ljd_pipe.recv())
+
+    for proc in procs:
+        proc.join()
+
+    if save_benchmarks:
+        with open('data\\benchmarks.csv', 'a') as save_file:
+            # save_file.write(''.join(['ml_type,tr_size,te_size,kernel_s,',
+            #                          'mae,time,lj_s,lj_e,date_ran\n']))
+            ltime = time.localtime()[:3][::-1]
+            ljm_se = ',' + str(ljm_sigma) + ',' + str(ljm_epsilon) + ','
+            date = '/'.join([str(field) for field in ltime])
+            for cm, ljm, in zip(cm_bench_results, ljm_bench_results):
+                cm_text = ','.join([str(field) for field in cm])\
+                    + ',' + date + '\n'
+                ljm_text = ','.join([str(field) for field in ljm])\
+                    + ljm_se + date + '\n'
+                save_file.write(cm_text)
+                save_file.write(ljm_text)
+
+    # End of program
+    end_time = time.perf_counter()
+    printc('Program took {:.4f} seconds.'.format(end_time - init_time),
+           'CYAN')
-- 
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