Removal of matrix_out as this is now handled in the python logging system

Author: harryswift01

CodeEntropy/config/arg_config_manager.py

@@ -53,11 +53,6 @@
         "help": "Name of the file where the output will be written",
         "default": "output_file.json",
     },
-    "matrix_out": {
-        "type": str,
-        "help": "Name of the file where certain matrices will be written",
-        "default": None,
-    },
     "force_partitioning": {"type": float, "help": "Force partitioning", "default": 0.5},
     "water_entropy": {
         "type": bool,

config.yaml

@@ -10,7 +10,6 @@ run1:
   temperature:
   verbose:
   thread: 
-  output_file:
-  matrix_output: 
+  output_file: 
   force_partitioning:
   water_entropy:

tests/test_EntropyFunctions/test_arg_config_manager.py

@@ -63,7 +63,6 @@ def setup_file(self, mock_file):
             "verbose: False\n  "
             "thread: 1\n  "
             "output_file: 'output_file.json'\n  "
-            "matrix_out: null\n  "
             "force_partitioning: 0.5\n  "
             "water_entropy: False"
         ).return_value
@@ -126,7 +125,6 @@ def test_invalid_run_config_type(self):
             verbose=False,
             thread=1,
             output_file="output_file.json",
-            matrix_out=None,
             force_partitioning=0.5,
             water_entropy=False,
         ),
@@ -270,7 +268,6 @@ def test_merge_configs(self):
             verbose=None,
             thread=None,
             output_file=None,
-            matrix_out=None,
             force_partitioning=None,
             water_entropy=None,
         )
@@ -285,7 +282,6 @@ def test_merge_configs(self):
             "verbose": False,
             "thread": 1,
             "output_file": "output_file.json",
-            "matrix_out": None,
             "force_partitioning": 0.5,
             "water_entropy": False,
         }

tests/test_EntropyFunctions/test_main_mcc.py

@@ -55,7 +55,6 @@ def setup_file(self, mock_file):
             "verbose: False\n  "
             "thread: 1\n  "
             "output_file: 'output_file.json'\n  "
-            "matrix_out: null\n  "
             "force_partitioning: 0.5\n  "
             "water_entropy: False"
         ).return_value