Merge pull request #53 from BrainAnnex/dev

Dev Beta 27

Author: BrainAnnex

README.md

@@ -1,4 +1,4 @@
-### BETA 26.3 (v0.26.3)
+### BETA 27 (v0.27.0)
 
 
 

experiments/1D/diffusion/diffusion_1.ipynb

@@ -10,7 +10,7 @@
     "The system starts out with a \"concentration pulse\" in bin 2 (the 3rd bin from the left) - i.e. that bin is initially the only one with a non-zero concentration of the only chemical species.\n",
     "Then the system is left undisturbed, and followed to equilibrium.\n",
     "\n",
-    "LAST REVISED: May 27, 2023"
+    "LAST REVISED: June 4, 2023"
    ]
   },
   {
@@ -45,7 +45,7 @@
     "import plotly.express as px\n",
     "import plotly.graph_objects as go\n",
     "\n",
-    "from src.modules.reactions.reaction_data import ReactionData as chem\n",
+    "from src.modules.reactions.reaction_data import ChemData as chem\n",
     "from src.modules.html_log.html_log import HtmlLog as log\n",
     "from src.modules.visualization.graphic_log import GraphicLog"
    ]

experiments/1D/diffusion/diffusion_1.py

@@ -18,7 +18,7 @@
 # The system starts out with a "concentration pulse" in bin 2 (the 3rd bin from the left) - i.e. that bin is initially the only one with a non-zero concentration of the only chemical species.
 # Then the system is left undisturbed, and followed to equilibrium.
 #
-# LAST REVISED: May 27, 2023
+# LAST REVISED: June 4, 2023
 
 # %%
 import set_path      # Importing this module will add the project's home directory to sys.path
@@ -31,7 +31,7 @@
 import plotly.express as px
 import plotly.graph_objects as go
 
-from src.modules.reactions.reaction_data import ReactionData as chem
+from src.modules.reactions.reaction_data import ChemData as chem
 from src.modules.html_log.html_log import HtmlLog as log
 from src.modules.visualization.graphic_log import GraphicLog
 

experiments/1D/diffusion/diffusion_along_gradient_1.ipynb

@@ -10,7 +10,7 @@
     "Contrary to perhaps an intuition of a \"pile sliding down a sand dune as a unit\", the concentration peak\n",
     "remains in place, and simply spreads out from there\n",
     "\n",
-    "LAST REVISED: May 27, 2023"
+    "LAST REVISED: June 4, 2023"
    ]
   },
   {
@@ -41,7 +41,7 @@
     "from src.life_1D.bio_sim_1d import BioSim1D\n",
     "\n",
     "import plotly.express as px\n",
-    "from src.modules.reactions.reaction_data import ReactionData as chem"
+    "from src.modules.reactions.reaction_data import ChemData as chem"
    ]
   },
   {

experiments/1D/diffusion/diffusion_along_gradient_1.py

@@ -18,7 +18,7 @@
 # Contrary to perhaps an intuition of a "pile sliding down a sand dune as a unit", the concentration peak
 # remains in place, and simply spreads out from there
 #
-# LAST REVISED: May 27, 2023
+# LAST REVISED: June 4, 2023
 
 # %%
 import set_path      # Importing this module will add the project's home directory to sys.path
@@ -27,7 +27,7 @@
 from src.life_1D.bio_sim_1d import BioSim1D
 
 import plotly.express as px
-from src.modules.reactions.reaction_data import ReactionData as chem
+from src.modules.reactions.reaction_data import ChemData as chem
 
 # %%
 # Initialize the system

experiments/1D/diffusion/diffusion_along_gradient_2.ipynb

@@ -17,7 +17,7 @@
     "Just as seen in the case of *diffusion_along_gradient_1*, the concentration peak\n",
     "remains in place, and simply spreads out from there\n",
     "\n",
-    "LAST REVISED: May 27, 2023"
+    "LAST REVISED: June 4, 2023"
    ]
   },
   {
@@ -48,7 +48,7 @@
     "from src.life_1D.bio_sim_1d import BioSim1D\n",
     "\n",
     "import plotly.express as px\n",
-    "from src.modules.reactions.reaction_data import ReactionData as chem"
+    "from src.modules.reactions.reaction_data import ChemData as chem"
    ]
   },
   {

experiments/1D/diffusion/diffusion_along_gradient_2.py

@@ -25,7 +25,7 @@
 # Just as seen in the case of *diffusion_along_gradient_1*, the concentration peak
 # remains in place, and simply spreads out from there
 #
-# LAST REVISED: May 27, 2023
+# LAST REVISED: June 4, 2023
 
 # %%
 import set_path      # Importing this module will add the project's home directory to sys.path
@@ -34,7 +34,7 @@
 from src.life_1D.bio_sim_1d import BioSim1D
 
 import plotly.express as px
-from src.modules.reactions.reaction_data import ReactionData as chem
+from src.modules.reactions.reaction_data import ChemData as chem
 
 # %%
 # Initialize the system with a uniform concentration (of the only species)

experiments/1D/diffusion/gradient_1.ipynb

@@ -11,7 +11,7 @@
     "The system starts out with a uniform concentration.  \n",
     "Then identical concentrations are repeatedly *injected to the left* and *drained from the right*\n",
     "\n",
-    "LAST REVISED: May 27, 2023"
+    "LAST REVISED: June 4, 2023"
    ]
   },
   {
@@ -46,7 +46,7 @@
     "import plotly.express as px\n",
     "import plotly.graph_objects as go\n",
     "\n",
-    "from src.modules.reactions.reaction_data import ReactionData as chem\n",
+    "from src.modules.reactions.reaction_data import ChemData as chem\n",
     "from src.modules.html_log.html_log import HtmlLog as log\n",
     "from src.modules.visualization.graphic_log import GraphicLog"
    ]

experiments/1D/diffusion/gradient_1.py

@@ -19,7 +19,7 @@
 # The system starts out with a uniform concentration.  
 # Then identical concentrations are repeatedly *injected to the left* and *drained from the right*
 #
-# LAST REVISED: May 27, 2023
+# LAST REVISED: June 4, 2023
 
 # %%
 import set_path      # Importing this module will add the project's home directory to sys.path
@@ -32,7 +32,7 @@
 import plotly.express as px
 import plotly.graph_objects as go
 
-from src.modules.reactions.reaction_data import ReactionData as chem
+from src.modules.reactions.reaction_data import ChemData as chem
 from src.modules.html_log.html_log import HtmlLog as log
 from src.modules.visualization.graphic_log import GraphicLog
 

experiments/1D/diffusion/low_pass_1.ipynb

@@ -15,7 +15,7 @@
     "    2 - A sine wave of frequency 10 , of amplitude 4  \n",
     "    3 - A sine wave of frequency 40 , of amplitude 2  \n",
     "\n",
-    "LAST REVISED: May 27, 2023"
+    "LAST REVISED: June 4, 2023"
    ]
   },
   {
@@ -50,7 +50,7 @@
     "import plotly.express as px\n",
     "import plotly.graph_objects as go\n",
     "\n",
-    "from src.modules.reactions.reaction_data import ReactionData as chem\n",
+    "from src.modules.reactions.reaction_data import ChemData as chem\n",
     "from src.modules.html_log.html_log import HtmlLog as log\n",
     "from src.modules.visualization.graphic_log import GraphicLog"
    ]