Final implementation of a specific mesh for MCC, added a case for

cylFlow that used two meshes and the User Manual has been updated.

runs/cylFlow/input.json

@@ -8,7 +8,7 @@
   "geometry": {
     "type":     "2DCyl",
     "meshType": "gmsh2",
-    "meshFile": "mesh.msh"
+    "meshFile": "meshSingle.msh"
   },
   "species": [
     {"name": "Argon",  "type": "neutral", "mass": 6.633e-26, "weight": 5.0e8}
@@ -57,7 +57,7 @@
   },
   "parallel": {
     "OpenMP":{
-      "nThreads": 8
+      "nThreads": 24
     }
   }
 }

runs/cylFlow/inputDualMesh.json

@@ -0,0 +1,64 @@
+{
+  "output": {
+    "path": "./runs/cylFlow/",
+	"triggerOutput": 10,
+	"cpuTime": true,
+	"numColl": true
+  },
+  "geometry": {
+    "type":     "2DCyl",
+    "meshType": "gmsh2",
+    "meshFile": "mesh.msh"
+  },
+  "species": [
+    {"name": "Argon",  "type": "neutral", "mass": 6.633e-26, "weight": 5.0e8}
+  ],
+  "boundary": [ 
+    {"name": "Injection",      "physicalSurface": 1, "bTypes": [
+                                                       {"type": "transparent"}
+                                                      ]},
+    {"name": "Chamber Walls",  "physicalSurface": 2, "bTypes": [
+                                                       {"type": "reflection"}
+                                                      ]},
+    {"name": "Exterior",       "physicalSurface": 3, "bTypes": [
+                                                       {"type": "transparent"}
+                                                      ]},
+    {"name": "Cylinder Walls", "physicalSurface": 4, "bTypes": [
+                                                       {"type": "reflection"}
+                                                      ]},
+    {"name": "Axis",           "physicalSurface": 5, "bTypes": [
+                                                       {"type": "axis"}
+                                                      ]}
+  ],
+  "inject": [
+    {"name": "Nozzle", "species": "Argon", "flow": 10.0, "units": "sccm",     "v": 300.0, "T": [300.0, 300.0, 300.0],
+                       "velDist": ["Maxwellian", "Maxwellian", "Maxwellian"], "n": [1, 0, 0], "physicalSurface": 1}
+  ],
+  "reference": {
+    "density": 1.0e20,
+    "mass": 6.633e-26,
+    "temperature": 300.0,
+    "radius": 1.88e-10
+  },
+  "case": {
+    "tau":  [5.0e-7],
+    "time":  1.0e-3,
+    "pusher": ["2DCylNeutral"],
+    "WeightingScheme": "Volume"
+  },
+  "interactions": {
+    "folderCollisions": "./data/collisions/",
+    "meshCollisions": "meshColl.msh",
+    "collisions": [
+      {"species_i": "Argon", "species_j": "Argon", 
+       "cTypes": [
+         {"type": "elastic", "crossSection": "EL_Ar-Ar.dat"}
+       ]}
+    ]
+  },
+  "parallel": {
+    "OpenMP":{
+      "nThreads": 24
+    }
+  }
+}

runs/cylFlow/mesh.geo

@@ -62,10 +62,13 @@ Physical Surface(4) = {4};
 Physical Surface(5) = {5};
 
 Transfinite Line {12, 2, 4, 6} = cyl_h/Lcell + 1 Using Progression 1;
-Transfinite Line {1, 13, 10} = cyl_s/Lcell + 1 Using Progression 1;
-Transfinite Line {11, 16, 15, 7} = (dom_h - cyl_h)/Lcell + 1 Using Progression 1;
+Transfinite Line {10} = cyl_s/Lcell + 1 Using Progression 1;
+Transfinite Line {1, 13} = cyl_s/Lcell + 1 Using Progression 0.95;
+Transfinite Line {11, 7} = (dom_h - cyl_h)/Lcell + 1 Using Progression 1;
+Transfinite Line {16,-15} = (dom_h - cyl_h)/Lcell + 1 Using Progression 0.95;
 Transfinite Line {3, 9} = cyl_l/Lcell + 1 Using Progression 1;
-Transfinite Line {5, 14, 8} = (dom_l - cyl_e)/Lcell + 1 Using Progression 1;
+Transfinite Line {8} = (dom_l - cyl_e)/Lcell + 1 Using Progression 1;
+Transfinite Line {-5, -14} = (dom_l - cyl_e)/Lcell + 1 Using Progression 0.95;
 
 Transfinite Surface{1};
 Recombine Surface {1};

runs/cylFlow/meshColl.geo

@@ -0,0 +1,73 @@
+cl__1 = 1;
+cyl_h = 0.005;
+cyl_l = 0.02;
+cyl_s = 0.03;
+cyl_e = cyl_s + cyl_l;
+dom_h = 0.03;
+dom_l = 0.07;
+
+Lcell = 0.001;
+
+Point(1)  = {0,     0,     0, cl__1};
+Point(2)  = {cyl_s, 0,     0, cl__1};
+Point(3)  = {cyl_s, cyl_h, 0, cl__1};
+Point(4)  = {cyl_e, cyl_h, 0, cl__1};
+Point(5)  = {cyl_e, 0,     0, cl__1};
+Point(6)  = {dom_l, 0,     0, cl__1};
+Point(7)  = {dom_l, cyl_h, 0, cl__1};
+Point(8)  = {dom_l, dom_h, 0, cl__1};
+Point(9)  = {cyl_e, dom_h, 0, cl__1};
+Point(10) = {cyl_s, dom_h, 0, cl__1};
+Point(11) = {0,     dom_h, 0, cl__1};
+Point(12) = {0,     cyl_h, 0, cl__1};
+
+Line(1)  = {1,  2};
+Line(2)  = {2,  3};
+Line(3)  = {3,  4};
+Line(4)  = {4,  5};
+Line(5)  = {5,  6};
+Line(6)  = {6,  7};
+Line(7)  = {7,  8};
+Line(8)  = {8,  9};
+Line(9)  = {9,  10};
+Line(10) = {10, 11};
+Line(11) = {11, 12};
+Line(12) = {12, 1};
+Line(13) = {12, 3};
+Line(14) = {4,  7};
+Line(15) = {4,  9};
+Line(16) = {10, 3};
+
+Line Loop(1) = {1, 2, -13, 12};
+Plane Surface(1) = {1};
+Line Loop(2) = {13, -16, 10, 11};
+Plane Surface(2) = {2};
+Line Loop(3) = {3, 15, 9, 16};
+Plane Surface(3) = {3};
+Line Loop(4) = {5, 6, -14, 4};
+Plane Surface(4) = {4};
+Line Loop(5) = {14, 7, 8, -15};
+Plane Surface(5) = {5};
+
+Physical Surface(1) = {1};
+Physical Surface(2) = {2};
+Physical Surface(3) = {3};
+Physical Surface(4) = {4};
+Physical Surface(5) = {5};
+
+Transfinite Line {12, 2, 4, 6} = cyl_h/Lcell + 1 Using Progression 1;
+Transfinite Line {1, 13, 10} = cyl_s/Lcell + 1 Using Progression 1;
+Transfinite Line {11, 16, 15, 7} = (dom_h - cyl_h)/Lcell + 1 Using Progression 1;
+Transfinite Line {3, 9} = cyl_l/Lcell + 1 Using Progression 1;
+Transfinite Line {5, 14, 8} = (dom_l - cyl_e)/Lcell + 1 Using Progression 1;
+
+Transfinite Surface{1};
+Recombine Surface {1};
+Transfinite Surface{2};
+Recombine Surface {2};
+Transfinite Surface{3};
+Recombine Surface {3};
+Transfinite Surface{4};
+Recombine Surface {4};
+Transfinite Surface{5};
+Recombine Surface {5};

runs/cylFlow/meshSingle.geo

@@ -0,0 +1,79 @@
+cl__1 = 1;
+cyl_h = 0.005;
+cyl_l = 0.02;
+cyl_s = 0.03;
+cyl_e = cyl_s + cyl_l;
+dom_h = 0.03;
+dom_l = 0.07;
+
+Lcell = 0.001;
+
+Point(1)  = {0,     0,     0, cl__1};
+Point(2)  = {cyl_s, 0,     0, cl__1};
+Point(3)  = {cyl_s, cyl_h, 0, cl__1};
+Point(4)  = {cyl_e, cyl_h, 0, cl__1};
+Point(5)  = {cyl_e, 0,     0, cl__1};
+Point(6)  = {dom_l, 0,     0, cl__1};
+Point(7)  = {dom_l, cyl_h, 0, cl__1};
+Point(8)  = {dom_l, dom_h, 0, cl__1};
+Point(9)  = {cyl_e, dom_h, 0, cl__1};
+Point(10) = {cyl_s, dom_h, 0, cl__1};
+Point(11) = {0,     dom_h, 0, cl__1};
+Point(12) = {0,     cyl_h, 0, cl__1};
+
+Line(1)  = {1,  2};
+Line(2)  = {2,  3};
+Line(3)  = {3,  4};
+Line(4)  = {4,  5};
+Line(5)  = {5,  6};
+Line(6)  = {6,  7};
+Line(7)  = {7,  8};
+Line(8)  = {8,  9};
+Line(9)  = {9,  10};
+Line(10) = {10, 11};
+Line(11) = {11, 12};
+Line(12) = {12, 1};
+Line(13) = {12, 3};
+Line(14) = {4,  7};
+Line(15) = {4,  9};
+Line(16) = {10, 3};
+
+Line Loop(1) = {1, 2, -13, 12};
+Plane Surface(1) = {1};
+Line Loop(2) = {13, -16, 10, 11};
+Plane Surface(2) = {2};
+Line Loop(3) = {3, 15, 9, 16};
+Plane Surface(3) = {3};
+Line Loop(4) = {5, 6, -14, 4};
+Plane Surface(4) = {4};
+Line Loop(5) = {14, 7, 8, -15};
+Plane Surface(5) = {5};
+
+Physical Line(1) = {12, 11};
+Physical Line(2) = {10, 9, 8};
+Physical Line(3) = {7, 6};
+Physical Line(4) = {2, 3, 4};
+Physical Line(5) = {1, 5};
+
+Physical Surface(1) = {1};
+Physical Surface(2) = {2};
+Physical Surface(3) = {3};
+Physical Surface(4) = {4};
+Physical Surface(5) = {5};
+
+Transfinite Line {12, 2, 4, 6} = cyl_h/Lcell + 1 Using Progression 1;
+Transfinite Line {1, 13, 10} = cyl_s/Lcell + 1 Using Progression 1;
+Transfinite Line {11, 16, 15, 7} = (dom_h - cyl_h)/Lcell + 1 Using Progression 1;
+Transfinite Line {3, 9} = cyl_l/Lcell + 1 Using Progression 1;
+Transfinite Line {5, 14, 8} = (dom_l - cyl_e)/Lcell + 1 Using Progression 1;
+
+Transfinite Surface{1};
+Recombine Surface {1};
+Transfinite Surface{2};
+Recombine Surface {2};
+Transfinite Surface{3};
+Recombine Surface {3};
+Transfinite Surface{4};
+Recombine Surface {4};
+Transfinite Surface{5};
+Recombine Surface {5};