From 21a558121d0225433e26804404ec5385e874a058 Mon Sep 17 00:00:00 2001
From: jessicasyu <15913767+jessicasyu@users.noreply.github.com>
Date: Tue, 31 Jan 2023 16:49:17 -0500
Subject: [PATCH] Rename comp/lat/loc packages in patch

---
 .../agent/action/PatchActionConvert.java      |  4 +--
 .../patch/agent/action/PatchActionInsert.java |  6 ++---
 .../patch/agent/action/PatchActionRemove.java |  4 +--
 src/arcade/patch/agent/cell/PatchCell.java    |  6 ++---
 .../patch/agent/cell/PatchCellCancer.java     |  2 +-
 .../patch/agent/cell/PatchCellCancerStem.java |  2 +-
 .../patch/agent/cell/PatchCellContainer.java  |  2 +-
 .../patch/agent/cell/PatchCellTissue.java     |  2 +-
 .../patch/agent/module/PatchModule.java       |  2 +-
 .../agent/module/PatchModuleMigration.java    |  2 +-
 .../module/PatchModuleProliferation.java      |  2 +-
 .../patch/agent/process/PatchProcess.java     |  2 +-
 .../PatchComponentCycle.java                  |  8 +++---
 .../PatchComponentDegrade.java                | 12 ++++-----
 .../PatchComponentPulse.java                  |  8 +++---
 .../PatchComponentRemodel.java                | 16 ++++++------
 .../PatchComponentSites.java                  |  6 ++---
 .../PatchComponentSitesGraph.java             | 18 ++++++-------
 .../PatchComponentSitesGraphFactory.java      |  8 +++---
 .../PatchComponentSitesGraphFactoryRect.java  |  8 +++---
 .../PatchComponentSitesGraphFactoryTri.java   |  8 +++---
 .../PatchComponentSitesGraphRect.java         |  8 +++---
 .../PatchComponentSitesGraphTri.java          | 10 +++----
 .../PatchComponentSitesGraphUtilities.java    | 14 +++++-----
 .../PatchComponentSitesPattern.java           |  2 +-
 .../PatchComponentSitesPatternRect.java       |  2 +-
 .../PatchComponentSitesPatternTri.java        |  2 +-
 .../PatchComponentSitesSource.java            |  2 +-
 src/arcade/patch/env/grid/PatchGrid.java      |  4 +--
 .../env/{lat => lattice}/PatchLattice.java    | 10 +++----
 .../{lat => lattice}/PatchLatticeFactory.java |  4 +--
 .../PatchLatticeFactoryRect.java              |  2 +-
 .../PatchLatticeFactoryTri.java               |  2 +-
 .../{lat => lattice}/PatchLatticeRect.java    |  2 +-
 .../env/{lat => lattice}/PatchLatticeTri.java |  2 +-
 .../env/{loc => location}/Coordinate.java     |  2 +-
 .../env/{loc => location}/CoordinateUVWZ.java |  2 +-
 .../env/{loc => location}/CoordinateXYZ.java  |  2 +-
 .../env/{loc => location}/PatchLocation.java  | 24 ++++++++---------
 .../PatchLocationContainer.java               |  8 +++---
 .../PatchLocationFactory.java                 |  6 ++---
 .../PatchLocationFactoryHex.java              |  2 +-
 .../PatchLocationFactoryRect.java             |  2 +-
 .../{loc => location}/PatchLocationHex.java   | 16 ++++++------
 .../{loc => location}/PatchLocationRect.java  | 18 ++++++-------
 .../patch/env/operation/PatchOperation.java   |  2 +-
 .../env/operation/PatchOperationDiffuser.java |  2 +-
 .../operation/PatchOperationDiffuserRect.java |  2 +-
 .../operation/PatchOperationDiffuserTri.java  |  2 +-
 .../operation/PatchOperationGenerator.java    |  2 +-
 src/arcade/patch/sim/PatchSimulation.java     | 20 +++++++-------
 src/arcade/patch/sim/PatchSimulationHex.java  | 26 +++++++++----------
 src/arcade/patch/sim/PatchSimulationRect.java | 26 +++++++++----------
 .../patch/sim/input/PatchInputBuilder.java    | 10 +++----
 .../sim/output/PatchOutputDeserializer.java   | 10 +++----
 .../sim/output/PatchOutputSerializer.java     | 10 +++----
 src/arcade/patch/vis/PatchDrawer.java         |  6 ++---
 src/arcade/patch/vis/PatchDrawerHex.java      | 20 +++++++-------
 src/arcade/patch/vis/PatchDrawerRect.java     | 18 ++++++-------
 59 files changed, 216 insertions(+), 216 deletions(-)
 rename src/arcade/patch/env/{comp => component}/PatchComponentCycle.java (95%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentDegrade.java (93%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentPulse.java (97%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentRemodel.java (93%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSites.java (96%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraph.java (97%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraphFactory.java (99%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraphFactoryRect.java (98%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraphFactoryTri.java (98%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraphRect.java (96%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraphTri.java (97%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesGraphUtilities.java (98%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesPattern.java (99%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesPatternRect.java (99%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesPatternTri.java (99%)
 rename src/arcade/patch/env/{comp => component}/PatchComponentSitesSource.java (99%)
 rename src/arcade/patch/env/{lat => lattice}/PatchLattice.java (96%)
 rename src/arcade/patch/env/{lat => lattice}/PatchLatticeFactory.java (96%)
 rename src/arcade/patch/env/{lat => lattice}/PatchLatticeFactoryRect.java (94%)
 rename src/arcade/patch/env/{lat => lattice}/PatchLatticeFactoryTri.java (94%)
 rename src/arcade/patch/env/{lat => lattice}/PatchLatticeRect.java (97%)
 rename src/arcade/patch/env/{lat => lattice}/PatchLatticeTri.java (97%)
 rename src/arcade/patch/env/{loc => location}/Coordinate.java (96%)
 rename src/arcade/patch/env/{loc => location}/CoordinateUVWZ.java (97%)
 rename src/arcade/patch/env/{loc => location}/CoordinateXYZ.java (97%)
 rename src/arcade/patch/env/{loc => location}/PatchLocation.java (90%)
 rename src/arcade/patch/env/{loc => location}/PatchLocationContainer.java (87%)
 rename src/arcade/patch/env/{loc => location}/PatchLocationFactory.java (95%)
 rename src/arcade/patch/env/{loc => location}/PatchLocationFactoryHex.java (97%)
 rename src/arcade/patch/env/{loc => location}/PatchLocationFactoryRect.java (97%)
 rename src/arcade/patch/env/{loc => location}/PatchLocationHex.java (95%)
 rename src/arcade/patch/env/{loc => location}/PatchLocationRect.java (94%)

diff --git a/src/arcade/patch/agent/action/PatchActionConvert.java b/src/arcade/patch/agent/action/PatchActionConvert.java
index acab7dd4..de82d525 100644
--- a/src/arcade/patch/agent/action/PatchActionConvert.java
+++ b/src/arcade/patch/agent/action/PatchActionConvert.java
@@ -4,14 +4,14 @@
 import sim.engine.SimState;
 import sim.util.Bag;
 import arcade.core.agent.action.Action;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.cell.PatchCell;
 import arcade.patch.agent.cell.PatchCellContainer;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.loc.Coordinate;
+import arcade.patch.env.location.Coordinate;
 import arcade.patch.sim.PatchSimulation;
 import static arcade.patch.util.PatchEnums.Ordering;
 
diff --git a/src/arcade/patch/agent/action/PatchActionInsert.java b/src/arcade/patch/agent/action/PatchActionInsert.java
index 0635d16d..49992be6 100644
--- a/src/arcade/patch/agent/action/PatchActionInsert.java
+++ b/src/arcade/patch/agent/action/PatchActionInsert.java
@@ -4,7 +4,7 @@
 import sim.engine.Schedule;
 import sim.engine.SimState;
 import arcade.core.agent.action.Action;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
@@ -12,8 +12,8 @@
 import arcade.patch.agent.cell.PatchCell;
 import arcade.patch.agent.cell.PatchCellContainer;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.loc.Coordinate;
-import arcade.patch.env.loc.PatchLocationContainer;
+import arcade.patch.env.location.Coordinate;
+import arcade.patch.env.location.PatchLocationContainer;
 import arcade.patch.sim.PatchSeries;
 import arcade.patch.sim.PatchSimulation;
 import static arcade.patch.util.PatchEnums.Ordering;
diff --git a/src/arcade/patch/agent/action/PatchActionRemove.java b/src/arcade/patch/agent/action/PatchActionRemove.java
index f676cc30..938afcbe 100644
--- a/src/arcade/patch/agent/action/PatchActionRemove.java
+++ b/src/arcade/patch/agent/action/PatchActionRemove.java
@@ -6,12 +6,12 @@
 import sim.util.Bag;
 import arcade.core.agent.action.Action;
 import arcade.core.agent.cell.Cell;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.loc.Coordinate;
+import arcade.patch.env.location.Coordinate;
 import arcade.patch.sim.PatchSeries;
 import arcade.patch.sim.PatchSimulation;
 import static arcade.core.util.Enums.State;
diff --git a/src/arcade/patch/agent/cell/PatchCell.java b/src/arcade/patch/agent/cell/PatchCell.java
index fd7713ce..43b01e4c 100644
--- a/src/arcade/patch/agent/cell/PatchCell.java
+++ b/src/arcade/patch/agent/cell/PatchCell.java
@@ -11,7 +11,7 @@
 import arcade.core.agent.cell.CellContainer;
 import arcade.core.agent.module.Module;
 import arcade.core.agent.process.Process;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.module.PatchModuleApoptosis;
@@ -20,7 +20,7 @@
 import arcade.patch.agent.process.PatchProcessMetabolism;
 import arcade.patch.agent.process.PatchProcessSignaling;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.patch.env.location.PatchLocation;
 import static arcade.core.util.Enums.Domain;
 import static arcade.core.util.Enums.Region;
 import static arcade.core.util.Enums.State;
@@ -65,7 +65,7 @@ public abstract class PatchCell implements Cell {
     /** Stopper used to stop this agent from being stepped in the schedule. */
     Stoppable stopper;
     
-    /** Cell {@link arcade.core.env.loc.Location} object. */
+    /** Cell {@link Location} object. */
     final PatchLocation location;
     
     /** Unique cell ID. */
diff --git a/src/arcade/patch/agent/cell/PatchCellCancer.java b/src/arcade/patch/agent/cell/PatchCellCancer.java
index c7f6c6e8..9b8de1a7 100644
--- a/src/arcade/patch/agent/cell/PatchCellCancer.java
+++ b/src/arcade/patch/agent/cell/PatchCellCancer.java
@@ -2,7 +2,7 @@
 
 import sim.engine.SimState;
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import static arcade.core.util.Enums.State;
diff --git a/src/arcade/patch/agent/cell/PatchCellCancerStem.java b/src/arcade/patch/agent/cell/PatchCellCancerStem.java
index 8955ee62..74ff0197 100644
--- a/src/arcade/patch/agent/cell/PatchCellCancerStem.java
+++ b/src/arcade/patch/agent/cell/PatchCellCancerStem.java
@@ -1,7 +1,7 @@
 package arcade.patch.agent.cell;
 
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.util.MiniBox;
 import static arcade.core.util.Enums.State;
 
diff --git a/src/arcade/patch/agent/cell/PatchCellContainer.java b/src/arcade/patch/agent/cell/PatchCellContainer.java
index 443a315f..1e538a43 100644
--- a/src/arcade/patch/agent/cell/PatchCellContainer.java
+++ b/src/arcade/patch/agent/cell/PatchCellContainer.java
@@ -3,7 +3,7 @@
 import arcade.core.agent.cell.Cell;
 import arcade.core.agent.cell.CellContainer;
 import arcade.core.agent.cell.CellFactory;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.util.MiniBox;
 import static arcade.core.util.Enums.State;
 
diff --git a/src/arcade/patch/agent/cell/PatchCellTissue.java b/src/arcade/patch/agent/cell/PatchCellTissue.java
index a6a4a4ed..5c389439 100644
--- a/src/arcade/patch/agent/cell/PatchCellTissue.java
+++ b/src/arcade/patch/agent/cell/PatchCellTissue.java
@@ -1,7 +1,7 @@
 package arcade.patch.agent.cell;
 
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.util.MiniBox;
 import static arcade.core.util.Enums.State;
 
diff --git a/src/arcade/patch/agent/module/PatchModule.java b/src/arcade/patch/agent/module/PatchModule.java
index c050b083..854969fc 100644
--- a/src/arcade/patch/agent/module/PatchModule.java
+++ b/src/arcade/patch/agent/module/PatchModule.java
@@ -2,7 +2,7 @@
 
 import arcade.core.agent.module.Module;
 import arcade.patch.agent.cell.PatchCell;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.patch.env.location.PatchLocation;
 
 /**
  * Abstract implementation of {@link Module} for {@link PatchCell} agents.
diff --git a/src/arcade/patch/agent/module/PatchModuleMigration.java b/src/arcade/patch/agent/module/PatchModuleMigration.java
index ac01c48f..2ed40c02 100644
--- a/src/arcade/patch/agent/module/PatchModuleMigration.java
+++ b/src/arcade/patch/agent/module/PatchModuleMigration.java
@@ -4,7 +4,7 @@
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.cell.PatchCell;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.patch.env.location.PatchLocation;
 import static arcade.core.util.Enums.State;
 
 /**
diff --git a/src/arcade/patch/agent/module/PatchModuleProliferation.java b/src/arcade/patch/agent/module/PatchModuleProliferation.java
index 14f1798b..46750113 100644
--- a/src/arcade/patch/agent/module/PatchModuleProliferation.java
+++ b/src/arcade/patch/agent/module/PatchModuleProliferation.java
@@ -7,7 +7,7 @@
 import arcade.patch.agent.cell.PatchCell;
 import arcade.patch.agent.process.PatchProcess;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.patch.env.location.PatchLocation;
 import static arcade.core.util.Enums.Domain;
 import static arcade.core.util.Enums.State;
 
diff --git a/src/arcade/patch/agent/process/PatchProcess.java b/src/arcade/patch/agent/process/PatchProcess.java
index 0792cff3..c3913176 100644
--- a/src/arcade/patch/agent/process/PatchProcess.java
+++ b/src/arcade/patch/agent/process/PatchProcess.java
@@ -2,7 +2,7 @@
 
 import arcade.core.agent.process.Process;
 import arcade.patch.agent.cell.PatchCell;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.patch.env.location.PatchLocation;
 
 /**
  * Abstract implementation of {@link Process} for {@link PatchCell} agents.
diff --git a/src/arcade/patch/env/comp/PatchComponentCycle.java b/src/arcade/patch/env/component/PatchComponentCycle.java
similarity index 95%
rename from src/arcade/patch/env/comp/PatchComponentCycle.java
rename to src/arcade/patch/env/component/PatchComponentCycle.java
index 4dd399cb..24c46eaa 100644
--- a/src/arcade/patch/env/comp/PatchComponentCycle.java
+++ b/src/arcade/patch/env/component/PatchComponentCycle.java
@@ -1,17 +1,17 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import sim.engine.Schedule;
 import sim.engine.SimState;
-import arcade.core.env.comp.Component;
-import arcade.core.env.lat.Lattice;
+import arcade.core.env.component.Component;
+import arcade.core.env.lattice.Lattice;
 import arcade.core.env.operation.Operation;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import arcade.patch.env.operation.PatchOperationGenerator;
 import static arcade.core.util.Enums.Category;
-import static arcade.patch.env.comp.PatchComponentSites.SiteLayer;
+import static arcade.patch.env.component.PatchComponentSites.SiteLayer;
 import static arcade.patch.util.PatchEnums.Ordering;
 
 /**
diff --git a/src/arcade/patch/env/comp/PatchComponentDegrade.java b/src/arcade/patch/env/component/PatchComponentDegrade.java
similarity index 93%
rename from src/arcade/patch/env/comp/PatchComponentDegrade.java
rename to src/arcade/patch/env/component/PatchComponentDegrade.java
index d134c918..bc695fd8 100644
--- a/src/arcade/patch/env/comp/PatchComponentDegrade.java
+++ b/src/arcade/patch/env/component/PatchComponentDegrade.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import java.util.HashSet;
@@ -6,17 +6,17 @@
 import sim.engine.SimState;
 import sim.util.Bag;
 import arcade.core.agent.cell.Cell;
-import arcade.core.env.comp.Component;
-import arcade.core.env.loc.Location;
+import arcade.core.env.component.Component;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.Graph;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.cell.PatchCellCancer;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.loc.CoordinateXYZ;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.MINIMUM_WALL_THICKNESS;
+import arcade.patch.env.location.CoordinateXYZ;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.MINIMUM_WALL_THICKNESS;
 import static arcade.patch.util.PatchEnums.Ordering;
 
 /**
diff --git a/src/arcade/patch/env/comp/PatchComponentPulse.java b/src/arcade/patch/env/component/PatchComponentPulse.java
similarity index 97%
rename from src/arcade/patch/env/comp/PatchComponentPulse.java
rename to src/arcade/patch/env/component/PatchComponentPulse.java
index 7a7307e5..24030357 100644
--- a/src/arcade/patch/env/comp/PatchComponentPulse.java
+++ b/src/arcade/patch/env/component/PatchComponentPulse.java
@@ -1,10 +1,10 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import sim.engine.Schedule;
 import sim.engine.SimState;
-import arcade.core.env.comp.Component;
-import arcade.core.env.lat.Lattice;
+import arcade.core.env.component.Component;
+import arcade.core.env.lattice.Lattice;
 import arcade.core.env.operation.Operation;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
@@ -12,7 +12,7 @@
 import arcade.patch.env.operation.PatchOperationGenerator;
 import arcade.patch.sim.PatchSeries;
 import static arcade.core.util.Enums.Category;
-import static arcade.patch.env.comp.PatchComponentSites.SiteLayer;
+import static arcade.patch.env.component.PatchComponentSites.SiteLayer;
 import static arcade.patch.util.PatchEnums.Ordering;
 
 /**
diff --git a/src/arcade/patch/env/comp/PatchComponentRemodel.java b/src/arcade/patch/env/component/PatchComponentRemodel.java
similarity index 93%
rename from src/arcade/patch/env/comp/PatchComponentRemodel.java
rename to src/arcade/patch/env/component/PatchComponentRemodel.java
index faa583a7..957e14e7 100644
--- a/src/arcade/patch/env/comp/PatchComponentRemodel.java
+++ b/src/arcade/patch/env/component/PatchComponentRemodel.java
@@ -1,18 +1,18 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import sim.engine.Schedule;
 import sim.engine.SimState;
 import sim.util.Bag;
-import arcade.core.env.comp.Component;
+import arcade.core.env.component.Component;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.Graph;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.loc.CoordinateXYZ;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.MAXIMUM_WALL_RADIUS_FRACTION;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.MINIMUM_CAPILLARY_RADIUS;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.MINIMUM_WALL_THICKNESS;
+import arcade.patch.env.location.CoordinateXYZ;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.MAXIMUM_WALL_RADIUS_FRACTION;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.MINIMUM_CAPILLARY_RADIUS;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.MINIMUM_WALL_THICKNESS;
 import static arcade.patch.util.PatchEnums.Ordering;
 
 /**
@@ -68,7 +68,7 @@ public class PatchComponentRemodel implements Component {
     private Graph graph;
     
     /**
-     * Creates a {@link arcade.core.env.comp.Component} object for remodeling.
+     * Creates a {@link arcade.core.env.component.Component} object for remodeling.
      * <p>
      * Loaded parameters include:
      * <ul>
diff --git a/src/arcade/patch/env/comp/PatchComponentSites.java b/src/arcade/patch/env/component/PatchComponentSites.java
similarity index 96%
rename from src/arcade/patch/env/comp/PatchComponentSites.java
rename to src/arcade/patch/env/component/PatchComponentSites.java
index e58e2fb5..172649d5 100644
--- a/src/arcade/patch/env/comp/PatchComponentSites.java
+++ b/src/arcade/patch/env/component/PatchComponentSites.java
@@ -1,9 +1,9 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import sim.engine.Schedule;
-import arcade.core.env.comp.Component;
-import arcade.core.env.lat.Lattice;
+import arcade.core.env.component.Component;
+import arcade.core.env.lattice.Lattice;
 import arcade.core.env.operation.Operation;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraph.java b/src/arcade/patch/env/component/PatchComponentSitesGraph.java
similarity index 97%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraph.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraph.java
index 49ebfb29..46e43db4 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraph.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraph.java
@@ -1,11 +1,11 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import java.util.HashMap;
 import java.util.LinkedHashSet;
 import sim.util.Bag;
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.util.Graph;
 import arcade.core.util.Graph.Edge;
@@ -13,12 +13,12 @@
 import arcade.core.util.MiniBox;
 import arcade.core.util.Solver;
 import arcade.core.util.Solver.Function;
-import arcade.patch.env.loc.CoordinateXYZ;
+import arcade.patch.env.location.CoordinateXYZ;
 import arcade.patch.sim.PatchSeries;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.EdgeLevel;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.EdgeTag;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.EdgeType;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.*;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.EdgeLevel;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.EdgeTag;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.EdgeType;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.*;
 
 /**
  * Extension of {@link PatchComponentSites} for graph sites.
@@ -191,8 +191,8 @@ Graph initializeGraph(MersenneTwisterFast random) {
      * Graph step that only considers differences in concentration.
      * <p>
      * Method is equivalent to the step used with
-     * {@link arcade.patch.env.comp.PatchComponentSitesSource} and
-     * {@link arcade.patch.env.comp.PatchComponentSitesPattern} where the amount
+     * {@link arcade.patch.env.component.PatchComponentSitesSource} and
+     * {@link arcade.patch.env.component.PatchComponentSitesPattern} where the amount
      * of concentration added is the difference between the source concentration
      * and the current concentration for a given molecule.
      */
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraphFactory.java b/src/arcade/patch/env/component/PatchComponentSitesGraphFactory.java
similarity index 99%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraphFactory.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraphFactory.java
index b7614ac1..e56630f9 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraphFactory.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraphFactory.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import java.util.HashMap;
@@ -11,9 +11,9 @@
 import arcade.core.util.Graph;
 import arcade.core.util.Graph.Node;
 import arcade.core.util.Utilities;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteNode;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.*;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteNode;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.*;
 
 /**
  * Factory for building a {@link Graph} for {@link PatchComponentSitesGraph}.
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraphFactoryRect.java b/src/arcade/patch/env/component/PatchComponentSitesGraphFactoryRect.java
similarity index 98%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraphFactoryRect.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraphFactoryRect.java
index 07999b12..eecb1b68 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraphFactoryRect.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraphFactoryRect.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import java.util.EnumMap;
@@ -9,9 +9,9 @@
 import arcade.core.util.Graph;
 import arcade.core.util.Utilities;
 import static arcade.core.util.Graph.Node;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteNode;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.*;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteNode;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.*;
 
 /**
  * Concrete implementation of {@link PatchComponentSitesGraphFactory} for
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraphFactoryTri.java b/src/arcade/patch/env/component/PatchComponentSitesGraphFactoryTri.java
similarity index 98%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraphFactoryTri.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraphFactoryTri.java
index 78c664f8..bd5bef33 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraphFactoryTri.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraphFactoryTri.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import java.util.EnumMap;
@@ -9,9 +9,9 @@
 import arcade.core.util.Graph;
 import arcade.core.util.Utilities;
 import static arcade.core.util.Graph.Node;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteNode;
-import static arcade.patch.env.comp.PatchComponentSitesGraphUtilities.*;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteNode;
+import static arcade.patch.env.component.PatchComponentSitesGraphUtilities.*;
 
 /**
  * Concrete implementation of {@link PatchComponentSitesGraphFactory} for
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraphRect.java b/src/arcade/patch/env/component/PatchComponentSitesGraphRect.java
similarity index 96%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraphRect.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraphRect.java
index e8641aaf..f674b68a 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraphRect.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraphRect.java
@@ -1,13 +1,13 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import sim.engine.SimState;
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocationRect;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocationRect;
 
 /**
  * Extension of {@link PatchComponentSitesGraph} for rectangular geometry.
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraphTri.java b/src/arcade/patch/env/component/PatchComponentSitesGraphTri.java
similarity index 97%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraphTri.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraphTri.java
index 89fd68a5..4adc3823 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraphTri.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraphTri.java
@@ -1,14 +1,14 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import sim.engine.SimState;
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import arcade.core.sim.Series;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.loc.CoordinateUVWZ;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocationHex;
+import arcade.patch.env.location.CoordinateUVWZ;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocationHex;
 
 /**
  * Extension of {@link PatchComponentSitesGraph} for triangular geometry.
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesGraphUtilities.java b/src/arcade/patch/env/component/PatchComponentSitesGraphUtilities.java
similarity index 98%
rename from src/arcade/patch/env/comp/PatchComponentSitesGraphUtilities.java
rename to src/arcade/patch/env/component/PatchComponentSitesGraphUtilities.java
index 8b56ef04..a7088bf5 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesGraphUtilities.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesGraphUtilities.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.ArrayList;
 import java.util.HashSet;
@@ -9,12 +9,12 @@
 import arcade.core.util.Matrix;
 import arcade.core.util.Solver;
 import static arcade.core.util.Graph.Edge;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import static arcade.patch.env.comp.PatchComponentSitesGraph.SiteNode;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.EdgeCategory;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.EdgeLevel;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.EdgeType;
-import static arcade.patch.env.comp.PatchComponentSitesGraphFactory.Root;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import static arcade.patch.env.component.PatchComponentSitesGraph.SiteNode;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.EdgeCategory;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.EdgeLevel;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.EdgeType;
+import static arcade.patch.env.component.PatchComponentSitesGraphFactory.Root;
 
 /**
  * Container for utility functions used by {@link PatchComponentSitesGraph}.
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesPattern.java b/src/arcade/patch/env/component/PatchComponentSitesPattern.java
similarity index 99%
rename from src/arcade/patch/env/comp/PatchComponentSitesPattern.java
rename to src/arcade/patch/env/component/PatchComponentSitesPattern.java
index 0264c5fe..803b7015 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesPattern.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesPattern.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.EnumMap;
 import sim.engine.SimState;
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesPatternRect.java b/src/arcade/patch/env/component/PatchComponentSitesPatternRect.java
similarity index 99%
rename from src/arcade/patch/env/comp/PatchComponentSitesPatternRect.java
rename to src/arcade/patch/env/component/PatchComponentSitesPatternRect.java
index a49d5a3d..288c4831 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesPatternRect.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesPatternRect.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.EnumMap;
 import arcade.core.sim.Series;
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesPatternTri.java b/src/arcade/patch/env/component/PatchComponentSitesPatternTri.java
similarity index 99%
rename from src/arcade/patch/env/comp/PatchComponentSitesPatternTri.java
rename to src/arcade/patch/env/component/PatchComponentSitesPatternTri.java
index 100c0237..fd6d63ae 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesPatternTri.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesPatternTri.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import java.util.EnumMap;
 import arcade.core.sim.Series;
diff --git a/src/arcade/patch/env/comp/PatchComponentSitesSource.java b/src/arcade/patch/env/component/PatchComponentSitesSource.java
similarity index 99%
rename from src/arcade/patch/env/comp/PatchComponentSitesSource.java
rename to src/arcade/patch/env/component/PatchComponentSitesSource.java
index 6c03b1f0..9a1df1af 100644
--- a/src/arcade/patch/env/comp/PatchComponentSitesSource.java
+++ b/src/arcade/patch/env/component/PatchComponentSitesSource.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.comp;
+package arcade.patch.env.component;
 
 import sim.engine.SimState;
 import arcade.core.sim.Series;
diff --git a/src/arcade/patch/env/grid/PatchGrid.java b/src/arcade/patch/env/grid/PatchGrid.java
index 1be564fc..81a763ed 100644
--- a/src/arcade/patch/env/grid/PatchGrid.java
+++ b/src/arcade/patch/env/grid/PatchGrid.java
@@ -5,8 +5,8 @@
 import sim.util.Bag;
 import arcade.core.agent.cell.Cell;
 import arcade.core.env.grid.Grid;
-import arcade.core.env.loc.Location;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.core.env.location.Location;
+import arcade.patch.env.location.PatchLocation;
 
 /**
  * Implementation of {@link Grid} for patch models.
diff --git a/src/arcade/patch/env/lat/PatchLattice.java b/src/arcade/patch/env/lattice/PatchLattice.java
similarity index 96%
rename from src/arcade/patch/env/lat/PatchLattice.java
rename to src/arcade/patch/env/lattice/PatchLattice.java
index 23e208b6..89c8be92 100644
--- a/src/arcade/patch/env/lat/PatchLattice.java
+++ b/src/arcade/patch/env/lattice/PatchLattice.java
@@ -1,16 +1,16 @@
-package arcade.patch.env.lat;
+package arcade.patch.env.lattice;
 
 import java.util.HashMap;
 import java.util.Map;
 import sim.engine.Schedule;
 import sim.engine.SimState;
-import arcade.core.env.lat.Lattice;
-import arcade.core.env.loc.Location;
+import arcade.core.env.lattice.Lattice;
+import arcade.core.env.location.Location;
 import arcade.core.env.operation.Operation;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocation;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocation;
 import static arcade.core.util.Enums.Category;
 import static arcade.patch.util.PatchEnums.Ordering;
 
diff --git a/src/arcade/patch/env/lat/PatchLatticeFactory.java b/src/arcade/patch/env/lattice/PatchLatticeFactory.java
similarity index 96%
rename from src/arcade/patch/env/lat/PatchLatticeFactory.java
rename to src/arcade/patch/env/lattice/PatchLatticeFactory.java
index fce34bc2..3bdffeee 100644
--- a/src/arcade/patch/env/lat/PatchLatticeFactory.java
+++ b/src/arcade/patch/env/lattice/PatchLatticeFactory.java
@@ -1,8 +1,8 @@
-package arcade.patch.env.lat;
+package arcade.patch.env.lattice;
 
 import java.util.HashMap;
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.lat.LatticeFactory;
+import arcade.core.env.lattice.LatticeFactory;
 import arcade.core.sim.Series;
 import arcade.core.util.MiniBox;
 
diff --git a/src/arcade/patch/env/lat/PatchLatticeFactoryRect.java b/src/arcade/patch/env/lattice/PatchLatticeFactoryRect.java
similarity index 94%
rename from src/arcade/patch/env/lat/PatchLatticeFactoryRect.java
rename to src/arcade/patch/env/lattice/PatchLatticeFactoryRect.java
index c373da10..65f64020 100644
--- a/src/arcade/patch/env/lat/PatchLatticeFactoryRect.java
+++ b/src/arcade/patch/env/lattice/PatchLatticeFactoryRect.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.lat;
+package arcade.patch.env.lattice;
 
 import arcade.core.util.MiniBox;
 
diff --git a/src/arcade/patch/env/lat/PatchLatticeFactoryTri.java b/src/arcade/patch/env/lattice/PatchLatticeFactoryTri.java
similarity index 94%
rename from src/arcade/patch/env/lat/PatchLatticeFactoryTri.java
rename to src/arcade/patch/env/lattice/PatchLatticeFactoryTri.java
index 5da7feac..52f458de 100644
--- a/src/arcade/patch/env/lat/PatchLatticeFactoryTri.java
+++ b/src/arcade/patch/env/lattice/PatchLatticeFactoryTri.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.lat;
+package arcade.patch.env.lattice;
 
 import arcade.core.util.MiniBox;
 
diff --git a/src/arcade/patch/env/lat/PatchLatticeRect.java b/src/arcade/patch/env/lattice/PatchLatticeRect.java
similarity index 97%
rename from src/arcade/patch/env/lat/PatchLatticeRect.java
rename to src/arcade/patch/env/lattice/PatchLatticeRect.java
index 1b8c67ce..11a1628b 100644
--- a/src/arcade/patch/env/lat/PatchLatticeRect.java
+++ b/src/arcade/patch/env/lattice/PatchLatticeRect.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.lat;
+package arcade.patch.env.lattice;
 
 import arcade.core.env.operation.Operation;
 import arcade.core.util.MiniBox;
diff --git a/src/arcade/patch/env/lat/PatchLatticeTri.java b/src/arcade/patch/env/lattice/PatchLatticeTri.java
similarity index 97%
rename from src/arcade/patch/env/lat/PatchLatticeTri.java
rename to src/arcade/patch/env/lattice/PatchLatticeTri.java
index d43b5aaa..aec892ec 100644
--- a/src/arcade/patch/env/lat/PatchLatticeTri.java
+++ b/src/arcade/patch/env/lattice/PatchLatticeTri.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.lat;
+package arcade.patch.env.lattice;
 
 import arcade.core.env.operation.Operation;
 import arcade.core.util.MiniBox;
diff --git a/src/arcade/patch/env/loc/Coordinate.java b/src/arcade/patch/env/location/Coordinate.java
similarity index 96%
rename from src/arcade/patch/env/loc/Coordinate.java
rename to src/arcade/patch/env/location/Coordinate.java
index 0b56d66f..12b46c52 100644
--- a/src/arcade/patch/env/loc/Coordinate.java
+++ b/src/arcade/patch/env/location/Coordinate.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 /**
  * Representation of a coordinate.
diff --git a/src/arcade/patch/env/loc/CoordinateUVWZ.java b/src/arcade/patch/env/location/CoordinateUVWZ.java
similarity index 97%
rename from src/arcade/patch/env/loc/CoordinateUVWZ.java
rename to src/arcade/patch/env/location/CoordinateUVWZ.java
index ce165949..41da1da5 100644
--- a/src/arcade/patch/env/loc/CoordinateUVWZ.java
+++ b/src/arcade/patch/env/location/CoordinateUVWZ.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 /**
  * Representation of (u, v, w, z) coordinate.
diff --git a/src/arcade/patch/env/loc/CoordinateXYZ.java b/src/arcade/patch/env/location/CoordinateXYZ.java
similarity index 97%
rename from src/arcade/patch/env/loc/CoordinateXYZ.java
rename to src/arcade/patch/env/location/CoordinateXYZ.java
index f84d649f..584ffe59 100644
--- a/src/arcade/patch/env/loc/CoordinateXYZ.java
+++ b/src/arcade/patch/env/location/CoordinateXYZ.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 /**
  * Representation of (x, y, z) coordinates.
diff --git a/src/arcade/patch/env/loc/PatchLocation.java b/src/arcade/patch/env/location/PatchLocation.java
similarity index 90%
rename from src/arcade/patch/env/loc/PatchLocation.java
rename to src/arcade/patch/env/location/PatchLocation.java
index c5ddfc11..86744940 100644
--- a/src/arcade/patch/env/loc/PatchLocation.java
+++ b/src/arcade/patch/env/location/PatchLocation.java
@@ -1,8 +1,8 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import java.util.ArrayList;
 import java.util.EnumSet;
-import arcade.core.env.loc.Location;
+import arcade.core.env.location.Location;
 import static arcade.core.util.Enums.Region;
 
 /**
@@ -10,10 +10,10 @@
  * <p>
  * {@code PatchLocation} objects define where agents are within the
  * {@link arcade.core.env.grid.Grid} (relative to other agents) and relative to
- * the {@link arcade.core.env.lat.Lattice} (local molecule concentrations). The
- * <em>coordinate</em> defines the location in the
+ * the {@link arcade.core.env.lattice.Lattice} (local molecule concentrations).
+ * The<em>coordinate</em> defines the location in the
  * {@link arcade.core.env.grid.Grid} while the term <em>subcoordinate(s)</em>
- * defines the location(s) in the {@link arcade.core.env.lat.Lattice}.
+ * defines the location(s) in the {@link arcade.core.env.lattice.Lattice}.
  * <p>
  * There may be multiple <em>subcoordinates</em> associated with the same
  * <em>coordinate</em> (therefore there may be more than one agent per
@@ -28,8 +28,8 @@
  * <p>
  * Regardless of geometry, the center of the model should have
  * {@link arcade.core.env.grid.Grid} location coordinate (0,0,0) or (0,0,0,0).
- * {@link arcade.core.env.lat.Lattice} arrays cannot have negative indices, so
- * (0,0,0) is located at the top left of the 2D array and the bottom layer of
+ * {@link arcade.core.env.lattice.Lattice} arrays cannot have negative indices,
+ * so (0,0,0) is located at the top left of the 2D array and the bottom layer of
  * the 3D stack.
  */
 
@@ -98,14 +98,14 @@ public PatchLocation(Coordinate coordinate, int n) {
      * Gets the patch coordinate in the {@link arcade.core.env.grid.Grid}.
      * <p>
      * These are not necessarily the same as the
-     * {@link arcade.core.env.lat.Lattice} coordinates.
+     * {@link arcade.core.env.lattice.Lattice} coordinates.
      *
      * @return  the coordinate
      */
     public Coordinate getCoordinate() { return coordinate; }
     
     /**
-     * Gets the patch subcoordinate in the {@link arcade.core.env.lat.Lattice}.
+     * Gets the patch subcoordinate in the {@link arcade.core.env.lattice.Lattice}.
      * <p>
      * These are not necessarily the same as the
      * {@link arcade.core.env.grid.Grid} coordinates.
@@ -115,7 +115,7 @@ public PatchLocation(Coordinate coordinate, int n) {
     public Coordinate getSubcoordinate() { return subcoordinates.get(0); }
     
     /**
-     * Gets all subcoordinates in the {@link arcade.core.env.lat.Lattice} that
+     * Gets all subcoordinates in the {@link arcade.core.env.lattice.Lattice} that
      * correspond to the {@link arcade.core.env.grid.Grid} location.
      *
      * @return  the array of subcoordinates
@@ -131,7 +131,7 @@ public PatchLocation(Coordinate coordinate, int n) {
     public abstract double getCoordinateSize();
     
     /**
-     * Gets the {@link arcade.core.env.lat.Lattice} coordinate size in the xy
+     * Gets the {@link arcade.core.env.lattice.Lattice} coordinate size in the xy
      * plane.
      *
      * @return  the subcoordinate size
@@ -154,7 +154,7 @@ public PatchLocation(Coordinate coordinate, int n) {
     
     /**
      * Gets the {@link arcade.core.env.grid.Grid} offset relative to the
-     * {@link arcade.core.env.lat.Lattice}.
+     * {@link arcade.core.env.lattice.Lattice}.
      */
     abstract void calculateOffset();
     
diff --git a/src/arcade/patch/env/loc/PatchLocationContainer.java b/src/arcade/patch/env/location/PatchLocationContainer.java
similarity index 87%
rename from src/arcade/patch/env/loc/PatchLocationContainer.java
rename to src/arcade/patch/env/location/PatchLocationContainer.java
index 1f614f00..dcc77a1f 100644
--- a/src/arcade/patch/env/loc/PatchLocationContainer.java
+++ b/src/arcade/patch/env/location/PatchLocationContainer.java
@@ -1,9 +1,9 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import arcade.core.agent.cell.CellContainer;
-import arcade.core.env.loc.Location;
-import arcade.core.env.loc.LocationContainer;
-import arcade.core.env.loc.LocationFactory;
+import arcade.core.env.location.Location;
+import arcade.core.env.location.LocationContainer;
+import arcade.core.env.location.LocationFactory;
 
 /**
  * Implementation of {@link LocationContainer} for {@link PatchLocation}
diff --git a/src/arcade/patch/env/loc/PatchLocationFactory.java b/src/arcade/patch/env/location/PatchLocationFactory.java
similarity index 95%
rename from src/arcade/patch/env/loc/PatchLocationFactory.java
rename to src/arcade/patch/env/location/PatchLocationFactory.java
index 0c0dc332..2e796844 100644
--- a/src/arcade/patch/env/loc/PatchLocationFactory.java
+++ b/src/arcade/patch/env/location/PatchLocationFactory.java
@@ -1,11 +1,11 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import java.util.ArrayList;
 import java.util.Comparator;
 import java.util.HashMap;
 import ec.util.MersenneTwisterFast;
-import arcade.core.env.loc.LocationContainer;
-import arcade.core.env.loc.LocationFactory;
+import arcade.core.env.location.LocationContainer;
+import arcade.core.env.location.LocationFactory;
 import arcade.core.sim.Series;
 import arcade.core.util.Utilities;
 import arcade.patch.sim.PatchSeries;
diff --git a/src/arcade/patch/env/loc/PatchLocationFactoryHex.java b/src/arcade/patch/env/location/PatchLocationFactoryHex.java
similarity index 97%
rename from src/arcade/patch/env/loc/PatchLocationFactoryHex.java
rename to src/arcade/patch/env/location/PatchLocationFactoryHex.java
index 33cd19b4..1c1fefcc 100644
--- a/src/arcade/patch/env/loc/PatchLocationFactoryHex.java
+++ b/src/arcade/patch/env/location/PatchLocationFactoryHex.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import java.util.ArrayList;
 
diff --git a/src/arcade/patch/env/loc/PatchLocationFactoryRect.java b/src/arcade/patch/env/location/PatchLocationFactoryRect.java
similarity index 97%
rename from src/arcade/patch/env/loc/PatchLocationFactoryRect.java
rename to src/arcade/patch/env/location/PatchLocationFactoryRect.java
index 9342dc57..3a9e2130 100644
--- a/src/arcade/patch/env/loc/PatchLocationFactoryRect.java
+++ b/src/arcade/patch/env/location/PatchLocationFactoryRect.java
@@ -1,4 +1,4 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import java.util.ArrayList;
 
diff --git a/src/arcade/patch/env/loc/PatchLocationHex.java b/src/arcade/patch/env/location/PatchLocationHex.java
similarity index 95%
rename from src/arcade/patch/env/loc/PatchLocationHex.java
rename to src/arcade/patch/env/location/PatchLocationHex.java
index 51d09995..d9472094 100644
--- a/src/arcade/patch/env/loc/PatchLocationHex.java
+++ b/src/arcade/patch/env/location/PatchLocationHex.java
@@ -1,18 +1,18 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import java.util.ArrayList;
-import arcade.core.env.loc.Location;
-import arcade.core.env.loc.LocationContainer;
+import arcade.core.env.location.Location;
+import arcade.core.env.location.LocationContainer;
 import arcade.patch.sim.PatchSeries;
 
 /**
  * Concrete implementation of {@link PatchLocation} for hexagonal
  * {@link arcade.core.env.grid.Grid} to a triangular
- * {@link arcade.core.env.lat.Lattice}.
+ * {@link arcade.core.env.lattice.Lattice}.
  * <p>
  * {@link arcade.core.env.grid.Grid} coordinates are in terms of (u, v, w) and
- * the {@link arcade.core.env.lat.Lattice} coordinates are in (x, y). Hexagons
- * are flat side up. Triangular {@link arcade.core.env.lat.Lattice}
+ * the {@link arcade.core.env.lattice.Lattice} coordinates are in (x, y).
+ * Hexagons are flat side up. Triangular {@link arcade.core.env.lattice.Lattice}
  * subcoordinates are ordered 0 - 5, with 0 at the top center and going
  * clockwise around.
  * <pre>
@@ -247,8 +247,8 @@ public LocationContainer convert(int id) {
     }
     
     /**
-     * Converts triangular {@link arcade.core.env.lat.Lattice} coordinates into
-     * a hexagonal {@link arcade.core.env.grid.Grid} coordinate.
+     * Converts triangular {@link arcade.core.env.lattice.Lattice} coordinates
+     * into a hexagonal {@link arcade.core.env.grid.Grid} coordinate.
      *
      * @param coordinate  the triangular coordinate
      * @return  the corresponding hexagonal coordinate
diff --git a/src/arcade/patch/env/loc/PatchLocationRect.java b/src/arcade/patch/env/location/PatchLocationRect.java
similarity index 94%
rename from src/arcade/patch/env/loc/PatchLocationRect.java
rename to src/arcade/patch/env/location/PatchLocationRect.java
index 261904a4..2863ba39 100644
--- a/src/arcade/patch/env/loc/PatchLocationRect.java
+++ b/src/arcade/patch/env/location/PatchLocationRect.java
@@ -1,19 +1,19 @@
-package arcade.patch.env.loc;
+package arcade.patch.env.location;
 
 import java.util.ArrayList;
-import arcade.core.env.loc.Location;
-import arcade.core.env.loc.LocationContainer;
+import arcade.core.env.location.Location;
+import arcade.core.env.location.LocationContainer;
 import arcade.patch.sim.PatchSeries;
 
 /**
  * Concrete implementation of {@link PatchLocation} for rectangular
  * {@link arcade.core.env.grid.Grid} to a rectangular
- * {@link arcade.core.env.lat.Lattice}.
+ * {@link arcade.core.env.lattice.Lattice}.
  * <p>
  * {@link arcade.core.env.grid.Grid} coordinates are in terms of (x, y) and the
- * {@link arcade.core.env.lat.Lattice} coordinates are in (a, b). Rectangular
- * {@link arcade.core.env.lat.Lattice} subcoordinates are ordered 0 - 3, with 0
- * at the top left and going clockwise around.
+ * {@link arcade.core.env.lattice.Lattice} coordinates are in (a, b).
+ * Rectangular {@link arcade.core.env.lattice.Lattice} subcoordinates are
+ * ordered 0 - 3, with 0 at the top left and going clockwise around.
  * <pre>
  *     ---------
  *     | 0 | 1 |
@@ -236,8 +236,8 @@ public LocationContainer convert(int id) {
     }
     
     /**
-     * Converts rectangular {@link arcade.core.env.lat.Lattice} coordinates into
-     * a rectangular {@link arcade.core.env.grid.Grid} coordinate.
+     * Converts rectangular {@link arcade.core.env.lattice.Lattice} coordinates
+     * into a rectangular {@link arcade.core.env.grid.Grid} coordinate.
      *
      * @param coordinate  the rectangular coordinate
      * @return  the corresponding rectangular coordinate
diff --git a/src/arcade/patch/env/operation/PatchOperation.java b/src/arcade/patch/env/operation/PatchOperation.java
index 8f50fb5b..8f8b25ee 100644
--- a/src/arcade/patch/env/operation/PatchOperation.java
+++ b/src/arcade/patch/env/operation/PatchOperation.java
@@ -1,7 +1,7 @@
 package arcade.patch.env.operation;
 
 import arcade.core.env.operation.Operation;
-import arcade.patch.env.lat.PatchLattice;
+import arcade.patch.env.lattice.PatchLattice;
 
 /**
  * Abstract implementation of {@link Operation} for {@link PatchLattice}
diff --git a/src/arcade/patch/env/operation/PatchOperationDiffuser.java b/src/arcade/patch/env/operation/PatchOperationDiffuser.java
index 0707139a..3bdb787c 100644
--- a/src/arcade/patch/env/operation/PatchOperationDiffuser.java
+++ b/src/arcade/patch/env/operation/PatchOperationDiffuser.java
@@ -4,7 +4,7 @@
 import arcade.core.env.operation.Operation;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.lat.PatchLattice;
+import arcade.patch.env.lattice.PatchLattice;
 import static arcade.core.util.Enums.Category;
 
 /**
diff --git a/src/arcade/patch/env/operation/PatchOperationDiffuserRect.java b/src/arcade/patch/env/operation/PatchOperationDiffuserRect.java
index 08613072..db36b158 100644
--- a/src/arcade/patch/env/operation/PatchOperationDiffuserRect.java
+++ b/src/arcade/patch/env/operation/PatchOperationDiffuserRect.java
@@ -1,6 +1,6 @@
 package arcade.patch.env.operation;
 
-import arcade.patch.env.lat.PatchLattice;
+import arcade.patch.env.lattice.PatchLattice;
 
 /**
  * Extension of {@link PatchOperationDiffuser} for rectangular lattices.
diff --git a/src/arcade/patch/env/operation/PatchOperationDiffuserTri.java b/src/arcade/patch/env/operation/PatchOperationDiffuserTri.java
index ca67c01d..0eda8668 100644
--- a/src/arcade/patch/env/operation/PatchOperationDiffuserTri.java
+++ b/src/arcade/patch/env/operation/PatchOperationDiffuserTri.java
@@ -1,6 +1,6 @@
 package arcade.patch.env.operation;
 
-import arcade.patch.env.lat.PatchLattice;
+import arcade.patch.env.lattice.PatchLattice;
 
 /**
  * Extension of {@link PatchOperationDiffuser} for triangular lattices.
diff --git a/src/arcade/patch/env/operation/PatchOperationGenerator.java b/src/arcade/patch/env/operation/PatchOperationGenerator.java
index 01add776..f2ac8e90 100644
--- a/src/arcade/patch/env/operation/PatchOperationGenerator.java
+++ b/src/arcade/patch/env/operation/PatchOperationGenerator.java
@@ -4,7 +4,7 @@
 import arcade.core.env.operation.Operation;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.lat.PatchLattice;
+import arcade.patch.env.lattice.PatchLattice;
 import static arcade.core.util.Enums.Category;
 
 /**
diff --git a/src/arcade/patch/sim/PatchSimulation.java b/src/arcade/patch/sim/PatchSimulation.java
index 02a79c68..9b6505ad 100644
--- a/src/arcade/patch/sim/PatchSimulation.java
+++ b/src/arcade/patch/sim/PatchSimulation.java
@@ -8,20 +8,20 @@
 import arcade.core.agent.action.Action;
 import arcade.core.agent.cell.Cell;
 import arcade.core.agent.cell.CellContainer;
-import arcade.core.env.comp.Component;
+import arcade.core.env.component.Component;
 import arcade.core.env.grid.Grid;
-import arcade.core.env.lat.Lattice;
-import arcade.core.env.loc.Location;
-import arcade.core.env.loc.LocationContainer;
+import arcade.core.env.lattice.Lattice;
+import arcade.core.env.location.Location;
+import arcade.core.env.location.LocationContainer;
 import arcade.core.sim.Series;
 import arcade.core.sim.Simulation;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.cell.PatchCell;
 import arcade.patch.agent.cell.PatchCellFactory;
 import arcade.patch.env.grid.PatchGrid;
-import arcade.patch.env.lat.PatchLattice;
-import arcade.patch.env.lat.PatchLatticeFactory;
-import arcade.patch.env.loc.PatchLocationFactory;
+import arcade.patch.env.lattice.PatchLattice;
+import arcade.patch.env.lattice.PatchLatticeFactory;
+import arcade.patch.env.location.PatchLocationFactory;
 
 /**
  * Abstract implementation for patch {@link Simulation} instances.
@@ -167,21 +167,21 @@ public void finish() {
     /**
      * Creates a factory for locations.
      *
-     * @return  a {@link arcade.core.env.loc.Location} factory
+     * @return  a {@link Location} factory
      */
     public abstract PatchLocationFactory makeLocationFactory();
     
     /**
      * Creates a factory for cells.
      *
-     * @return  a {@link arcade.core.agent.cell.Cell} factory
+     * @return  a {@link Cell} factory
      */
     public abstract PatchCellFactory makeCellFactory();
     
     /**
      * Creates a factory for lattices.
      *
-     * @return  a {@link arcade.core.env.lat.Lattice} factory
+     * @return  a {@link Lattice} factory
      */
     public abstract PatchLatticeFactory makeLatticeFactory();
     
diff --git a/src/arcade/patch/sim/PatchSimulationHex.java b/src/arcade/patch/sim/PatchSimulationHex.java
index 53d6ea71..8aed4da5 100644
--- a/src/arcade/patch/sim/PatchSimulationHex.java
+++ b/src/arcade/patch/sim/PatchSimulationHex.java
@@ -1,25 +1,25 @@
 package arcade.patch.sim;
 
 import arcade.core.agent.action.Action;
-import arcade.core.env.comp.Component;
+import arcade.core.env.component.Component;
 import arcade.core.sim.Series;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.action.PatchActionConvert;
 import arcade.patch.agent.action.PatchActionInsert;
 import arcade.patch.agent.action.PatchActionRemove;
 import arcade.patch.agent.cell.PatchCellFactory;
-import arcade.patch.env.comp.PatchComponentCycle;
-import arcade.patch.env.comp.PatchComponentDegrade;
-import arcade.patch.env.comp.PatchComponentPulse;
-import arcade.patch.env.comp.PatchComponentRemodel;
-import arcade.patch.env.comp.PatchComponentSitesGraphTri;
-import arcade.patch.env.comp.PatchComponentSitesPatternTri;
-import arcade.patch.env.comp.PatchComponentSitesSource;
-import arcade.patch.env.lat.PatchLatticeFactory;
-import arcade.patch.env.lat.PatchLatticeFactoryTri;
-import arcade.patch.env.loc.PatchLocationFactory;
-import arcade.patch.env.loc.PatchLocationFactoryHex;
-import arcade.patch.env.loc.PatchLocationHex;
+import arcade.patch.env.component.PatchComponentCycle;
+import arcade.patch.env.component.PatchComponentDegrade;
+import arcade.patch.env.component.PatchComponentPulse;
+import arcade.patch.env.component.PatchComponentRemodel;
+import arcade.patch.env.component.PatchComponentSitesGraphTri;
+import arcade.patch.env.component.PatchComponentSitesPatternTri;
+import arcade.patch.env.component.PatchComponentSitesSource;
+import arcade.patch.env.lattice.PatchLatticeFactory;
+import arcade.patch.env.lattice.PatchLatticeFactoryTri;
+import arcade.patch.env.location.PatchLocationFactory;
+import arcade.patch.env.location.PatchLocationFactoryHex;
+import arcade.patch.env.location.PatchLocationHex;
 
 /**
  * Extension of {@link PatchSimulation} for hexagonal geometry.
diff --git a/src/arcade/patch/sim/PatchSimulationRect.java b/src/arcade/patch/sim/PatchSimulationRect.java
index 25cd329b..ea614f01 100644
--- a/src/arcade/patch/sim/PatchSimulationRect.java
+++ b/src/arcade/patch/sim/PatchSimulationRect.java
@@ -1,25 +1,25 @@
 package arcade.patch.sim;
 
 import arcade.core.agent.action.Action;
-import arcade.core.env.comp.Component;
+import arcade.core.env.component.Component;
 import arcade.core.sim.Series;
 import arcade.core.util.MiniBox;
 import arcade.patch.agent.action.PatchActionConvert;
 import arcade.patch.agent.action.PatchActionInsert;
 import arcade.patch.agent.action.PatchActionRemove;
 import arcade.patch.agent.cell.PatchCellFactory;
-import arcade.patch.env.comp.PatchComponentCycle;
-import arcade.patch.env.comp.PatchComponentDegrade;
-import arcade.patch.env.comp.PatchComponentPulse;
-import arcade.patch.env.comp.PatchComponentRemodel;
-import arcade.patch.env.comp.PatchComponentSitesGraphRect;
-import arcade.patch.env.comp.PatchComponentSitesPatternRect;
-import arcade.patch.env.comp.PatchComponentSitesSource;
-import arcade.patch.env.lat.PatchLatticeFactory;
-import arcade.patch.env.lat.PatchLatticeFactoryRect;
-import arcade.patch.env.loc.PatchLocationFactory;
-import arcade.patch.env.loc.PatchLocationFactoryRect;
-import arcade.patch.env.loc.PatchLocationRect;
+import arcade.patch.env.component.PatchComponentCycle;
+import arcade.patch.env.component.PatchComponentDegrade;
+import arcade.patch.env.component.PatchComponentPulse;
+import arcade.patch.env.component.PatchComponentRemodel;
+import arcade.patch.env.component.PatchComponentSitesGraphRect;
+import arcade.patch.env.component.PatchComponentSitesPatternRect;
+import arcade.patch.env.component.PatchComponentSitesSource;
+import arcade.patch.env.lattice.PatchLatticeFactory;
+import arcade.patch.env.lattice.PatchLatticeFactoryRect;
+import arcade.patch.env.location.PatchLocationFactory;
+import arcade.patch.env.location.PatchLocationFactoryRect;
+import arcade.patch.env.location.PatchLocationRect;
 
 /**
  * Extension of {@link PatchSimulation} for rectangular geometry.
diff --git a/src/arcade/patch/sim/input/PatchInputBuilder.java b/src/arcade/patch/sim/input/PatchInputBuilder.java
index 68f3c1ee..ac28eb90 100644
--- a/src/arcade/patch/sim/input/PatchInputBuilder.java
+++ b/src/arcade/patch/sim/input/PatchInputBuilder.java
@@ -6,11 +6,11 @@
 import arcade.core.sim.input.InputBuilder;
 import arcade.core.util.Box;
 import arcade.core.util.MiniBox;
-import arcade.patch.env.loc.CoordinateUVWZ;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocation;
-import arcade.patch.env.loc.PatchLocationHex;
-import arcade.patch.env.loc.PatchLocationRect;
+import arcade.patch.env.location.CoordinateUVWZ;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocation;
+import arcade.patch.env.location.PatchLocationHex;
+import arcade.patch.env.location.PatchLocationRect;
 import arcade.patch.sim.PatchSeries;
 import static arcade.core.util.Box.KEY_SEPARATOR;
 import static arcade.core.util.MiniBox.TAG_SEPARATOR;
diff --git a/src/arcade/patch/sim/output/PatchOutputDeserializer.java b/src/arcade/patch/sim/output/PatchOutputDeserializer.java
index 8a895648..7966226d 100644
--- a/src/arcade/patch/sim/output/PatchOutputDeserializer.java
+++ b/src/arcade/patch/sim/output/PatchOutputDeserializer.java
@@ -11,13 +11,13 @@
 import com.google.gson.JsonObject;
 import com.google.gson.JsonParseException;
 import arcade.core.agent.cell.CellContainer;
-import arcade.core.env.loc.LocationContainer;
+import arcade.core.env.location.LocationContainer;
 import arcade.core.sim.output.OutputDeserializer;
 import arcade.patch.agent.cell.PatchCellContainer;
-import arcade.patch.env.loc.Coordinate;
-import arcade.patch.env.loc.CoordinateUVWZ;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocationContainer;
+import arcade.patch.env.location.Coordinate;
+import arcade.patch.env.location.CoordinateUVWZ;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocationContainer;
 import static arcade.core.sim.Simulation.DEFAULT_LOCATION_TYPE;
 import static arcade.core.util.Enums.State;
 
diff --git a/src/arcade/patch/sim/output/PatchOutputSerializer.java b/src/arcade/patch/sim/output/PatchOutputSerializer.java
index e25fdbb1..1e20b4a1 100644
--- a/src/arcade/patch/sim/output/PatchOutputSerializer.java
+++ b/src/arcade/patch/sim/output/PatchOutputSerializer.java
@@ -11,14 +11,14 @@
 import com.google.gson.JsonSerializationContext;
 import com.google.gson.JsonSerializer;
 import arcade.core.agent.cell.CellContainer;
-import arcade.core.env.loc.LocationContainer;
+import arcade.core.env.location.LocationContainer;
 import arcade.core.sim.Series;
 import arcade.core.sim.output.OutputSerializer;
 import arcade.patch.agent.cell.PatchCellContainer;
-import arcade.patch.env.loc.Coordinate;
-import arcade.patch.env.loc.CoordinateUVWZ;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocationContainer;
+import arcade.patch.env.location.Coordinate;
+import arcade.patch.env.location.CoordinateUVWZ;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocationContainer;
 import arcade.patch.sim.PatchSeries;
 import static arcade.core.sim.Simulation.DEFAULT_LOCATION_TYPE;
 
diff --git a/src/arcade/patch/vis/PatchDrawer.java b/src/arcade/patch/vis/PatchDrawer.java
index 7eef9c4c..d7e63085 100644
--- a/src/arcade/patch/vis/PatchDrawer.java
+++ b/src/arcade/patch/vis/PatchDrawer.java
@@ -26,9 +26,9 @@
 import arcade.core.util.Graph.Node;
 import arcade.core.vis.Drawer;
 import arcade.core.vis.Panel;
-import arcade.patch.env.comp.PatchComponentSitesGraph;
-import arcade.patch.env.comp.PatchComponentSitesGraph.SiteEdge;
-import arcade.patch.env.comp.PatchComponentSitesGraph.SiteNode;
+import arcade.patch.env.component.PatchComponentSitesGraph;
+import arcade.patch.env.component.PatchComponentSitesGraph.SiteEdge;
+import arcade.patch.env.component.PatchComponentSitesGraph.SiteNode;
 import arcade.patch.sim.PatchSimulation;
 import static arcade.patch.vis.PatchColorMaps.*;
 
diff --git a/src/arcade/patch/vis/PatchDrawerHex.java b/src/arcade/patch/vis/PatchDrawerHex.java
index 27017fbb..ef91d0cf 100644
--- a/src/arcade/patch/vis/PatchDrawerHex.java
+++ b/src/arcade/patch/vis/PatchDrawerHex.java
@@ -7,16 +7,16 @@
 import sim.util.gui.ColorMap;
 import arcade.core.vis.Panel;
 import arcade.patch.agent.cell.PatchCell;
-import arcade.patch.env.comp.PatchComponentSites;
-import arcade.patch.env.comp.PatchComponentSitesPattern;
-import arcade.patch.env.comp.PatchComponentSitesSource;
-import arcade.patch.env.loc.Coordinate;
-import arcade.patch.env.loc.CoordinateUVWZ;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocation;
-import arcade.patch.env.loc.PatchLocationContainer;
-import arcade.patch.env.loc.PatchLocationFactory;
-import arcade.patch.env.loc.PatchLocationFactoryHex;
+import arcade.patch.env.component.PatchComponentSites;
+import arcade.patch.env.component.PatchComponentSitesPattern;
+import arcade.patch.env.component.PatchComponentSitesSource;
+import arcade.patch.env.location.Coordinate;
+import arcade.patch.env.location.CoordinateUVWZ;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocation;
+import arcade.patch.env.location.PatchLocationContainer;
+import arcade.patch.env.location.PatchLocationFactory;
+import arcade.patch.env.location.PatchLocationFactoryHex;
 import arcade.patch.sim.PatchSeries;
 import arcade.patch.sim.PatchSimulation;
 
diff --git a/src/arcade/patch/vis/PatchDrawerRect.java b/src/arcade/patch/vis/PatchDrawerRect.java
index 5fa498c2..a6e73bae 100644
--- a/src/arcade/patch/vis/PatchDrawerRect.java
+++ b/src/arcade/patch/vis/PatchDrawerRect.java
@@ -7,15 +7,15 @@
 import sim.util.gui.ColorMap;
 import arcade.core.vis.Panel;
 import arcade.patch.agent.cell.PatchCell;
-import arcade.patch.env.comp.PatchComponentSites;
-import arcade.patch.env.comp.PatchComponentSitesPattern;
-import arcade.patch.env.comp.PatchComponentSitesSource;
-import arcade.patch.env.loc.Coordinate;
-import arcade.patch.env.loc.CoordinateXYZ;
-import arcade.patch.env.loc.PatchLocation;
-import arcade.patch.env.loc.PatchLocationContainer;
-import arcade.patch.env.loc.PatchLocationFactory;
-import arcade.patch.env.loc.PatchLocationFactoryRect;
+import arcade.patch.env.component.PatchComponentSites;
+import arcade.patch.env.component.PatchComponentSitesPattern;
+import arcade.patch.env.component.PatchComponentSitesSource;
+import arcade.patch.env.location.Coordinate;
+import arcade.patch.env.location.CoordinateXYZ;
+import arcade.patch.env.location.PatchLocation;
+import arcade.patch.env.location.PatchLocationContainer;
+import arcade.patch.env.location.PatchLocationFactory;
+import arcade.patch.env.location.PatchLocationFactoryRect;
 import arcade.patch.sim.PatchSeries;
 import arcade.patch.sim.PatchSimulation;