Add connectivity perf test

Makefile

@@ -15,4 +15,5 @@ test: binaries
 	cd tests/integration && python3 -m unittest test.py
 
 perf: binaries
-	cd tests/performance && python3 generation.py
+	cd tests/performance && python3 generation.py
+	cd tests/performance && python3 connectivity.py

tests/performance/conf_conn_128.ini

@@ -0,0 +1,44 @@
+[General]
+simDir=tests/performance/tmp_gen_output
+startJob=0
+[Iterables]
+p=[10,39,15]
+seeds=[5462,2]
+lc=[4]
+connectivity=[1,2,3]
+variances=[1]
+
+[Generation]
+Nx = 128
+Ny = 128
+Nz = 128
+variogram_type=1
+binary = no
+kh = 100
+kl = 0.01
+compute_lc = no
+lcBin=no
+genera=no
+
+
+[Connectivity]
+keep_aspect=yes
+block_size = 4
+indicators_MinBlockSize =4 
+Max_sample_size = 12
+compGconec= 1
+conec=yes
+
+
+[Solver]
+num_of_cores = 1
+ref = 2
+solve = no
+rtol = 1e-4
+
+[K-Postprocess]
+MinBlockSize =1
+Max_sample_size = 4
+kperm=no
+postprocess=no
+SaveVfield=no

tests/performance/conf_conn_256.ini

@@ -0,0 +1,44 @@
+[General]
+simDir=tests/performance/tmp_gen_output
+startJob=0
+[Iterables]
+p=[10,39,15]
+seeds=[5462,2]
+lc=[4]
+connectivity=[1,2,3]
+variances=[1]
+
+[Generation]
+Nx = 128
+Ny = 128
+Nz = 128
+variogram_type=1
+binary = no
+kh = 100
+kl = 0.01
+compute_lc = no
+lcBin=no
+genera=no
+
+
+[Connectivity]
+keep_aspect=yes
+block_size = 4
+indicators_MinBlockSize =4 
+Max_sample_size = 12
+compGconec= 1
+conec=yes
+
+
+[Solver]
+num_of_cores = 1
+ref = 2
+solve = no
+rtol = 1e-4
+
+[K-Postprocess]
+MinBlockSize =1
+Max_sample_size = 4
+kperm=no
+postprocess=no
+SaveVfield=no

tests/performance/conf_conn_512.ini

@@ -0,0 +1,44 @@
+[General]
+simDir=tests/performance/tmp_gen_output
+startJob=0
+[Iterables]
+p=[10,39,15]
+seeds=[5462,2]
+lc=[4]
+connectivity=[1,2,3]
+variances=[1]
+
+[Generation]
+Nx = 512
+Ny = 512
+Nz = 512
+variogram_type=1
+binary = no
+kh = 100
+kl = 0.01
+compute_lc = no
+lcBin=no
+genera=no
+
+
+[Connectivity]
+keep_aspect= yes
+block_size = 4
+indicators_MinBlockSize =4 
+Max_sample_size = 12
+compGconec= 1
+conec=yes
+
+
+[Solver]
+num_of_cores = 1
+ref = 2
+solve = no
+rtol = 1e-4
+
+[K-Postprocess]
+MinBlockSize =1
+Max_sample_size = 4
+kperm=no
+postprocess=no
+SaveVfield=no

tests/performance/conf_conn_64.ini

@@ -0,0 +1,44 @@
+[General]
+simDir=tests/performance/tmp_gen_output
+startJob=0
+[Iterables]
+p=[10,39,15]
+seeds=[5462,2]
+lc=[4]
+connectivity=[1,2,3]
+variances=[1]
+
+[Generation]
+Nx = 64
+Ny = 64
+Nz = 64
+variogram_type=1
+binary = no
+kh = 100
+kl = 0.01
+compute_lc = no
+lcBin=no
+genera=no
+
+
+[Connectivity]
+keep_aspect= yes
+block_size = 4
+indicators_MinBlockSize =4 
+Max_sample_size = 12
+compGconec= 1
+conec=yes
+
+
+[Solver]
+num_of_cores = 1
+ref = 2
+solve = no
+rtol = 1e-4
+
+[K-Postprocess]
+MinBlockSize =1
+Max_sample_size = 4
+kperm=no
+postprocess=no
+SaveVfield=no

tests/performance/connectivity.py

@@ -0,0 +1,51 @@
+import os
+from benchmarker import Benchmarker
+
+os.chdir('../..')
+
+config_gen_file_64 = os.path.abspath("./tests/performance/conf_gen_64.ini")
+config_gen_file_128 = os.path.abspath("./tests/performance/conf_gen_128.ini")
+config_gen_file_256 = os.path.abspath("./tests/performance/conf_gen_256.ini")
+
+config_conn_file_64 = os.path.abspath("./tests/performance/conf_conn_64.ini")
+config_conn_file_128 = os.path.abspath("./tests/performance/conf_conn_128.ini")
+config_conn_file_256 = os.path.abspath("./tests/performance/conf_conn_256.ini")
+
+GEN_CONFIG_FILES = [config_gen_file_64]
+CONN_CONFIG_FILES = [config_conn_file_64]
+
+index_1 = 0
+
+index_8 = 0
+
+with Benchmarker() as bench:
+
+    for i in range(len(CONN_CONFIG_FILES)):
+        size = 2**(6+i)
+
+        @bench(f"Connectivity 1 core with size {size}")
+        def _(bm):
+            global index_1
+            print(f"Running generation for {GEN_CONFIG_FILES[index_1]}")
+            os.system("CONFIG_FILE_PATH="+ GEN_CONFIG_FILES[index_1] + " mpirun -oversubscribe -np 1 python3 mpirunner.py")
+            print(f"End of generation for {GEN_CONFIG_FILES[index_1]}")
+            with bm:
+                os.system("CONFIG_FILE_PATH="+ CONN_CONFIG_FILES[index_1] + " mpirun -oversubscribe -np 1 python3 mpirunner.py")
+
+            ## teardown
+            os.system("rm -rf ./tests/performance/tmp_gen_output")
+            index_1 +=1
+
+        @bench(f"Connectivity 8 core with size {size}")
+        def _(bm):
+            global index_8
+            print(f"Running generation for {GEN_CONFIG_FILES[index_8]}")
+            os.system("CONFIG_FILE_PATH="+ GEN_CONFIG_FILES[index_8] + " mpirun -oversubscribe -np 8 python3 mpirunner.py")
+            print(f"End of generation for {GEN_CONFIG_FILES[index_8]}")
+            with bm:
+                os.system("CONFIG_FILE_PATH="+ CONN_CONFIG_FILES[index_8] + " mpirun -oversubscribe -np 8 python3 mpirunner.py")
+
+            ## teardown
+            os.system("rm -rf ./tests/performance/tmp_gen_output")
+            index_8 +=1
+