** This is a template input deck regarding the discrete-fiber model published in:
**Zarei V, Zhang S, Winkelstein BA, Barocas VH. 2017 
**Tissue loading and microstructure regulate the deformation of embedded nerve fibres: predictions from single-scale and multiscale simulations. 
**J. R. Soc. Interface 20170326. http://dx.doi.org/10.1098/rsif.2017.0326
*Heading
** Job name: Template Model name: Template
** Generated by: Abaqus/CAE 6.11-1
*Preprint, echo=NO, model=NO, history=NO, contact=NO
**
** PARTS
**
*Part, name=BLOCK
** Fiber network nodal coordinates
*Node
*include, input=FiberNodes.inp
** Node list of Boundaries of the network, FIX and MOVE are referred to opposite surfaces
*Nset, nset=FIXX
*include, input=FixX.inp
*Nset, nset=FIXY
*include, input=FixY.inp
*Nset, nset=FIXZ
*include, input=FixZ.inp
*Nset, nset=MOVEX
*include, input=MoveX.inp
*Nset, nset=MOVEY
*include, input=MoveY.inp
*Nset, nset=MOVEZ
*include, input=MoveZ.inp
** Section: Section-1-_PICKEDSET2
*End Part
**
**The geometry of the axon (cylinder)  
*Part, name=Cylinder
*Node
*include, input=CylinderNodes.inp
*Element, type=C3D8
*include, input=CylinderElements.inp
*Nset, nset=_PickedSet2, internal, generate
    1,  83817,     1
*Elset, elset=_PickedSet2, internal, generate
    1,  76800,     1
** Outer wall of the cylinder	
*Nset, nset=CYLWALLNODES
*include, input=CylWallNodes.inp
** The node list of the end surfaces of the cylinder
*Nset, nset=FIXZ
*include, input=FixZCyl.inp
*Nset, nset=MoveZ
*include, input=MoveZCyl.inp
** Section: Section-1-_PICKEDSET2
*Solid Section, elset=_PickedSet2, material=Elastic
,
*End Part
**  
**
** ASSEMBLY
**
*Assembly, name=Assembly
**  
*Instance, name=BLOCK-1, part=BLOCK
*End Instance
**  
*Instance, name=Cylinder-1, part=Cylinder
          0.,           0.,         -1.5
*End Instance
**  
*Element, type=CONN3D2
** Fibers of the network
*include, input=ConnFibers.inp
** Microtubules
*include, input=MTFibers.inp
** Circular collagen fibers wrapping around the axon
*include, input=CircFibers.inp
** Fibers representing the focal adhesions
*include, input=AdjFibers.inp
** Set of collagen fibers sections - They need to be included in different sets because each of them has 
** a different force-displacement relation
*include, input=FiberSet.inp
*Connector Section, elset=CircFibers, behavior=CONNSECTCIRC
Axial,
, "DATUM CSYS"
*Elset, elset=CircFibers, internal, generate
200001, 300000, 1
*Connector Section, elset=AdjFibers, behavior=CONNSECTADJ
Axial,
, "DATUM CSYS"
*Elset, elset=AdjFibers, internal, generate
300001, 400000, 1
*Connector Section, elset=MTFibers, behavior=CONNSECTMT
Axial,
, "DATUM CSYS"
*Elset, elset=MTFibers, internal, generate
100001, 200000, 1
*Orientation, name="DATUM CSYS"
          1.,           0.,           0.,           0.,           1.,           0.
1, 0.
*End Assembly
** Behavior of circular collagen fibers expressed as a force-displacement relationship
** Based on A=340e-09N and B=2.5 from the const. equation
** These fibers do not bear compressive load
*Connector Behavior, name=CONNSECTCIRC, regularize=OFF, extrapolation=LINEAR
*Connector Elasticity, nonlinear, component=1
-0.0, -1.0
0.000000000000000, 0.000000000000000
0.00000004633848400000, 0.005451963880645
0.00000011612849000000, 0.010903927761291
0.00000022355857800000, 0.016355891641936
0.00000039283664200000, 0.021807855522581
0.00000066619060600000, 0.027259819403227
0.00000111898275200000, 0.032711783283872
0.00000188889306200000, 0.038163747164517
0.00000323353970800000, 0.043615711045163
0.00000564686715200000, 0.049067674925808
** Behavior of focal adhesion fibers expressed as a force-displacement relationship
** Based on A=170e-09N and B=2.5 from the const. equation
** These fibers do not bear compressive load
*Connector Behavior, name=CONNSECTADJ, regularize=OFF, extrapolation=LINEAR
*Connector Elasticity, nonlinear, component=1
-0.0, -1.0
0.000000000000000, 0.000000000000000
0.000000023169242, 0.005451963880645
0.000000058064245, 0.010903927761291
0.000000111779289, 0.016355891641936
0.000000196418321, 0.021807855522581
0.000000333095303, 0.027259819403227
0.000000559491376, 0.032711783283872
0.000000944446531, 0.038163747164517
0.000001616769854, 0.043615711045163
0.000002823433576, 0.049067674925808
** Behavior of microtubules expressed as a force-displacement relations ship
** Based on spring constant of 0.942 k/m. Multiplied by e-6 because units of length are in micrometer
** These fibers do not bear compressive load
*Connector Behavior, name=CONNSECTMT, regularize=OFF, extrapolation=LINEAR
*Connector Elasticity, nonlinear, component=1
-0.0, -1.0
0.0, 0.0
9.42e-07, 1.0
** Files containing the force-displacement behavior of all collagen fiber sections.
** Based on A = 340e-09N and B=2.5 
*include, input=FiberBehaviors.inp
** 
** MATERIALS
** 
** Material used for non-microtubule part of the axon
*Material, name=Elastic
*Elastic
 43.3e-08,0.48
** ----------------------------------------------------------------
** 
** STEP: pull
** 
*Step, name=pull, nlgeom=YES, inc=10000
*Static
1e-02, 1., 1e-04, 3.
** 
** BOUNDARY CONDITIONS
** Transverse loading up to 40 % stretch 
*Boundary
BLOCK-1.FIXX, 1, 1, -1.
*Boundary
BLOCK-1.FIXX, 2, 2
*Boundary
BLOCK-1.FIXX, 3, 3
*Boundary
BLOCK-1.FIXY, 1, 1
*Boundary
BLOCK-1.FIXY, 2, 2
*Boundary
BLOCK-1.FIXY, 3, 3
*Boundary
BLOCK-1.FIXZ, 3, 3
*Boundary
Cylinder-1.FIXZ, 3, 3
*Boundary
BLOCK-1.MOVEX, 1, 1, 1.
*Boundary
BLOCK-1.MOVEX, 2, 2
*Boundary
BLOCK-1.MOVEX, 3, 3
*Boundary
BLOCK-1.MOVEY, 1, 1
*Boundary
BLOCK-1.MOVEY, 2, 2
*Boundary
BLOCK-1.MOVEY, 3, 3
*Boundary
BLOCK-1.MOVEZ, 3, 3
*Boundary
Cylinder-1.MOVEZ, 3, 3
** 
** OUTPUT REQUESTS
** 
*Restart, write, frequency=0
** 
** FIELD OUTPUT: F-Output-1
** 
*Output, field
*Element Output, directions=YES
E, MISES, S
*Node Output
RF, U, UR, UT, V, VR, VT
** 
** HISTORY OUTPUT: H-Output-1
** 
*End Step