From 1b4ce37c92fed1850d542660939911eb919e47a0 Mon Sep 17 00:00:00 2001
From: jobinhio <90212689+jobinhio@users.noreply.github.com>
Date: Fri, 14 Oct 2022 11:31:42 +0200
Subject: [PATCH] update suspension #138 (#143)

* update suspension #138

* add report from solid toolbox #136

* add imagesprefix support as described in #144

* add authors to metadata #145

* add imagesprefix support for #138 as described in #144

* add link to the simulation report and rename file
---
 .../csm/examples/suspension/suspension.cfg    |   3 -
 .../csm/examples/suspension/suspension.json   |  56 +-
 .../modules/csm/pages/suspension/index.adoc   |  14 +-
 .../pages/suspension/solid-informations.adoc  | 653 ++++++++++++++++++
 4 files changed, 705 insertions(+), 21 deletions(-)
 create mode 100644 examples/modules/csm/pages/suspension/solid-informations.adoc

diff --git a/examples/modules/csm/examples/suspension/suspension.cfg b/examples/modules/csm/examples/suspension/suspension.cfg
index 54a2875f..910e9c23 100644
--- a/examples/modules/csm/examples/suspension/suspension.cfg
+++ b/examples/modules/csm/examples/suspension/suspension.cfg
@@ -6,9 +6,6 @@ case.discretization=P2 #P1,P2
 [solid]
 filename=$cfgdir/suspension.json
 
-mesh.filename=girder:{file:5b1fd954b0e9570499f66bf1}
-gmsh.partition=1
-
 material_law=StVenantKirchhoff# StVenantKirchhoff, NeoHookean
 
 # use density and material coeff cst in appli
diff --git a/examples/modules/csm/examples/suspension/suspension.json b/examples/modules/csm/examples/suspension/suspension.json
index 646461b3..5d595098 100644
--- a/examples/modules/csm/examples/suspension/suspension.json
+++ b/examples/modules/csm/examples/suspension/suspension.json
@@ -2,9 +2,24 @@
 {
     "Name": "Solid Mechanics ",
     "ShortName":"Solid",
+    "Metadata":
+    {
+        "version": "1",
+        "author": ["vincentchabannes","prudhomm","lberti","jobinhio"],
+        "date": "23/09/2022",
+        "references":[""]
+    },
     "Models":
     {
-	"equations":"Elasticity"
+        "solid":
+	    {
+            "setup":
+            {
+                "equations":"Hyper-Elasticity",
+                "material-model":"StVenantKirchhoff"
+            }
+            
+        }
     },
     "Parameters":
     {
@@ -12,14 +27,26 @@
         {
             "value":"5e1"
         },
-	"omega":
-	{
-	    "value":"2"
-	}
+        "omega":
+        {
+            "value":"2"
+        }
+    },
+    "Meshes":
+    {
+        "solid":
+        {
+            "Import":
+            {
+                "filename":"girder:{file:5b1fd954b0e9570499f66bf1}",
+                "partition":"1"
+            }
+        }
     },
     "Materials":
     {
-        "omega":{
+        "omega":
+        {
             "E":"200e3",
             "nu":"0.3",
             "rho":"7870e-9"
@@ -27,16 +54,16 @@
     },
     "BoundaryConditions":
     {
-        "displacement":
+        "solid":
         {
-            "Dirichlet":
+            "displacement":
             {
                 "fixed":
                 {
                     "expr":"{0,0,0}"
                 }
             },
-            "Neumann_vectorial":
+            "normal_stress":
             {
                 "load":
                 {
@@ -47,10 +74,13 @@
     },
     "PostProcess":
     {
-	"Exports":
-	{
-            "fields":["displacement"]
-	}
+        "solid":
+        {
+            "Exports":
+            {
+                "fields":["displacement"]
+            }
+        }
     }
 
 }
diff --git a/examples/modules/csm/pages/suspension/index.adoc b/examples/modules/csm/pages/suspension/index.adoc
index c7b1bba3..7a349dc1 100644
--- a/examples/modules/csm/pages/suspension/index.adoc
+++ b/examples/modules/csm/pages/suspension/index.adoc
@@ -2,6 +2,8 @@
 :page-vtkjs: true
 :uri-data: https://github.com/feelpp/toolbox/blob/master/examples/modules/csm/examples
 :uri-data-edit: https://github.com/feelpp/toolbox/edit/master/examples/modules/csm/examples
+:imagesprefix: 
+ifdef::env-github,env-browser,env-vscode[:imagesprefix: ../../assets/images/]
 
 == Introduction
 
@@ -11,7 +13,7 @@ Nowadays they are manufactured in many design, but the effect of the main loads
 
 [cols="40%,60%"]
 |====
-a| image:suspension/image1.jpeg[width=100%] a| image:suspension/image2.jpeg[]
+a| image:{imagesprefix}suspension/image1.jpeg[width=100%] a| image:{imagesprefix}suspension/image2.jpeg[]
 |====
 
 == Running the case
@@ -33,6 +35,8 @@ Copy case option to clipboard
 </button>
 ++++
 
+NOTE: The report of the execution of the command above is available xref:suspension/solid-informations.adoc[here].
+
 == Data files
 
 The case data files are available in Github link:{uri-data}/suspension/[here]
@@ -63,8 +67,8 @@ The beam is made of steel, so we need to use the following data:
 
 IMPORTANT: The object is fixed at the ends of the holes. The holes in the middle have the force.
 
-image:suspension/image5.png[width=357,height=188]
-image:suspension/image6.png[1.png,width=209,height=188]
+image:{imagesprefix}suspension/image5.png[width=357,height=188]
+image:{imagesprefix}suspension/image6.png[1.png,width=209,height=188]
 
 == Results
 
@@ -77,8 +81,8 @@ We display the displacement in the figures below. A 20x scale factor is used to
 The maximum displacement is 1.778 mm. The design of the wishbones is very good because there is only little displacement due to the force.
 
 |====
-a| image:suspension/image7.png[] a| image:suspension/image8.png[] a| image:suspension/image9.png[]
-a| image:suspension/image10.png[] a| image:suspension/image11.png[] | 
+a| image:{imagesprefix}suspension/image7.png[] a| image:{imagesprefix}suspension/image8.png[] a| image:{imagesprefix}suspension/image9.png[]
+a| image:{imagesprefix}suspension/image10.png[] a| image:{imagesprefix}suspension/image11.png[] | 
 |====
 
 .3D interactive model
diff --git a/examples/modules/csm/pages/suspension/solid-informations.adoc b/examples/modules/csm/pages/suspension/solid-informations.adoc
new file mode 100644
index 00000000..324d4928
--- /dev/null
+++ b/examples/modules/csm/pages/suspension/solid-informations.adoc
@@ -0,0 +1,653 @@
+:sectnums:
+= Toolbox : solid
+== Environment
+
+[cols="2"]
+|===
+<|prefix
+<|solid
+
+<|keyword
+<|solid
+
+<|root repository
+<|/home/congo/feelppdb/toolboxes/solid/suspension/P2/np_1
+
+<|number of processus
+<|1
+|===
+
+== Physics
+=== solid
+==== solid
+
+[cols="2"]
+|===
+<|modeling
+<|solid
+
+<|type
+<|solid
+
+<|name
+<|solid
+|===
+
+
+[cols="2"]
+|===
+<|Equation
+<|Hyper-Elasticity
+|===
+
+
+
+
+== Physics2
+
+[cols="2"]
+|===
+<|time mode
+<|Transient
+|===
+
+== Materials Properties
+
+[cols="2"]
+|===
+<|number of materials
+<|1
+|===
+
+=== Material : omega
+
+[cols="5",options="header"]
+|===
+<|Name
+<|Expression
+<|Symbol
+<|Shape
+<|Components
+
+<|Lame-first-parameter
+<|-(1+materials_omega_nu)^(-1)*materials_omega_E*(-1+2*materials_omega_nu)^(-1)*materials_omega_nu
+<|materials_omega_lambdaLame
+<|scalar
+<|
+
+<|Lame-second-parameter
+<|1/2*materials_omega_E*(1+materials_omega_nu)^(-1)
+<|materials_omega_muLame
+<|scalar
+<|
+
+<|Poisson-ratio
+<|0.3
+<|materials_omega_nu
+<|scalar
+<|
+
+<|Young-modulus
+<|200000.0
+<|materials_omega_E
+<|scalar
+<|
+
+<|bulk-modulus
+<|-1/3*(-1+2*materials_omega_nu)^(-1)*materials_omega_E
+<|materials_omega_K
+<|scalar
+<|
+
+<|density
+<|7.87E-6
+<|materials_omega_rho
+<|scalar
+<|
+|===
+
+
+== Boundary Conditions
+=== Displacement Imposed
+==== fixed
+
+[cols="2"]
+|===
+<|method
+<|elimination
+
+<|expr
+<|{0,0,0}
+
+<|markers
+<a|
+[cols="1"]
+!===
+<!fixed
+!===
+
+|===
+
+
+=== Normal Stress
+==== load
+
+[cols="2"]
+|===
+<|frame
+<|lagrangian
+
+<|expr
+<|{amplitudo*sin(omega*t),0,0}
+
+<|markers
+<a|
+[cols="1"]
+!===
+<!load
+!===
+
+|===
+
+
+
+== Meshes
+=== Mesh : solid
+
+[cols="2"]
+|===
+<|Discretization
+<|/Mesh/solid
+
+<|filename
+<|/home/congo/feelppdb/toolboxes/solid/suspension/P2/np_1/solid.mesh.json
+|===
+
+==== Import configuration
+
+[cols="2"]
+|===
+<|mesh-filename
+<|/home/congo/feelppdb/toolboxes/solid/suspension/P2/downloads/solid/meshes/suspension.msh
+
+<|generate-partitioning
+<|1
+
+<|number-of-partition
+<|1
+|===
+
+==== Discretization
+
+[cols="2"]
+|===
+<|dim
+<|3
+
+<|h_average
+<|7.889597e+00
+
+<|h_max
+<|1.437040e+01
+
+<|h_min
+<|4.232083e+00
+
+<|n_edges
+<|46844
+
+<|n_elements
+<|32879
+
+<|n_faces
+<|71284
+
+<|n_partition
+<|1
+
+<|n_points
+<|8434
+
+<|order
+<|1
+
+<|real_dim
+<|3
+
+<|shape
+<|Simplex_3_1_3
+|===
+
+
+
+
+== Function Spaces
+=== Displacement
+
+[cols="2"]
+|===
+<|mesh
+<|/Mesh/solid
+
+<|nSpace
+<|1
+|===
+
+==== Basis
+
+[cols="2"]
+|===
+<|is_continuous
+<|1
+
+<|nComponents
+<|3
+
+<|nComponents1
+<|3
+
+<|nComponents2
+<|1
+
+<|nLocalDof
+<|10
+
+<|name
+<|lagrange
+
+<|order
+<|2
+
+<|shape
+<|vectorial
+|===
+
+==== Dof Table
+
+[cols="2"]
+|===
+<|nDof
+<|165834
+|===
+
+
+
+
+== Fields
+=== displacement
+
+[cols="2"]
+|===
+<|base symbol
+<|s
+
+<|function space
+<|/FunctionSpace/object-0
+
+<|name
+<|displacement
+
+<|prefix symbol
+<|solid
+|===
+
+
+[cols="5",options="header"]
+|===
+<|Name
+<|Expression
+<|Symbol
+<|Shape
+<|Components
+
+<|eval of displacement
+<|idv(.)
+<|solid_s
+<|vectorial [3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_s_0
+<!0,0
+
+<!solid_s_1
+<!1,0
+
+<!solid_s_2
+<!2,0
+!===
+
+
+<|norm2 of displacement
+<|norm2(.)
+<|solid_s_magnitude
+<|scalar
+<|
+
+<|grad of displacement
+<|gradv(.)
+<|solid_grad_s
+<|tensor2 [3x3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_grad_s_00
+<!0,0
+
+<!solid_grad_s_01
+<!0,1
+
+<!solid_grad_s_02
+<!0,2
+
+<!solid_grad_s_10
+<!1,0
+
+<!solid_grad_s_11
+<!1,1
+
+<!solid_grad_s_12
+<!1,2
+
+<!solid_grad_s_20
+<!2,0
+
+<!solid_grad_s_21
+<!2,1
+
+<!solid_grad_s_22
+<!2,2
+!===
+
+
+<|normal derivative of displacement
+<|dnv(.)
+<|solid_dn_s
+<|vectorial [3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_dn_s_0
+<!0,0
+
+<!solid_dn_s_1
+<!1,0
+
+<!solid_dn_s_2
+<!2,0
+!===
+
+
+<|curl of displacement
+<|curlv(.)
+<|solid_curl_s
+<|vectorial [3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_curl_s_0
+<!0,0
+
+<!solid_curl_s_1
+<!1,0
+
+<!solid_curl_s_2
+<!2,0
+!===
+
+
+<|norm2 of curl of displacement
+<|norm2(curlv(.))
+<|solid_curl_s_magnitude
+<|scalar
+<|
+
+<|div of displacement
+<|divv(.)
+<|solid_div_s
+<|scalar
+<|
+|===
+
+
+=== velocity
+
+[cols="2"]
+|===
+<|base symbol
+<|v
+
+<|function space
+<|/FunctionSpace/object-0
+
+<|name
+<|velocity
+
+<|prefix symbol
+<|solid
+|===
+
+
+[cols="5",options="header"]
+|===
+<|Name
+<|Expression
+<|Symbol
+<|Shape
+<|Components
+
+<|eval of velocity
+<|idv(.)
+<|solid_v
+<|vectorial [3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_v_0
+<!0,0
+
+<!solid_v_1
+<!1,0
+
+<!solid_v_2
+<!2,0
+!===
+
+
+<|norm2 of velocity
+<|norm2(.)
+<|solid_v_magnitude
+<|scalar
+<|
+
+<|grad of velocity
+<|gradv(.)
+<|solid_grad_v
+<|tensor2 [3x3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_grad_v_00
+<!0,0
+
+<!solid_grad_v_01
+<!0,1
+
+<!solid_grad_v_02
+<!0,2
+
+<!solid_grad_v_10
+<!1,0
+
+<!solid_grad_v_11
+<!1,1
+
+<!solid_grad_v_12
+<!1,2
+
+<!solid_grad_v_20
+<!2,0
+
+<!solid_grad_v_21
+<!2,1
+
+<!solid_grad_v_22
+<!2,2
+!===
+
+
+<|normal derivative of velocity
+<|dnv(.)
+<|solid_dn_v
+<|vectorial [3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_dn_v_0
+<!0,0
+
+<!solid_dn_v_1
+<!1,0
+
+<!solid_dn_v_2
+<!2,0
+!===
+
+
+<|curl of velocity
+<|curlv(.)
+<|solid_curl_v
+<|vectorial [3]
+<a|
+[cols="2",options="header"]
+!===
+<!Symbol
+<!Indices
+
+<!solid_curl_v_0
+<!0,0
+
+<!solid_curl_v_1
+<!1,0
+
+<!solid_curl_v_2
+<!2,0
+!===
+
+
+<|norm2 of curl of velocity
+<|norm2(curlv(.))
+<|solid_curl_v_magnitude
+<|scalar
+<|
+
+<|div of velocity
+<|divv(.)
+<|solid_div_v
+<|scalar
+<|
+|===
+
+
+
+== Algebraic Solver
+=== Backend
+
+[cols="2"]
+|===
+<|prefix
+<|solid
+
+<|type
+<|petsc
+|===
+
+=== KSP
+
+[cols="2"]
+|===
+<|atol
+<|1.000000e-50
+
+<|dtol
+<|1.000000e+05
+
+<|maxit
+<|1000
+
+<|reuse-prec
+<|0
+
+<|rtol
+<|1.000000e-08
+
+<|type
+<|gmres
+|===
+
+=== SNES
+
+[cols="2"]
+|===
+<|atol
+<|1.000000e-50
+
+<|maxit
+<|500
+
+<|reuse-jac
+<|0
+
+<|rtol
+<|1.000000e-08
+
+<|stol
+<|1.000000e-08
+|===
+
+=== KSP in SNES
+
+[cols="2"]
+|===
+<|maxit
+<|1000
+
+<|reuse-prec
+<|0
+
+<|rtol
+<|1.000000e-05
+|===
+
+=== PC
+
+[cols="2"]
+|===
+<|type
+<|gamg
+|===
+
+
+
+