Thinfilm change log

Force.h

• Used to be a part of ParadisProto.h in previous versions of the code.
• Added thinfilm variables to function definitions.

Home.h

• Identical to original code. However, it is needed in the thinfilm Include directory for the code to compile correctly.

Node.h

• Declared THINFILM_SURFACE_NODE = 6

Param.h

• Added thinfilm variable declarations.
• Added _STACKINGFAULT variable.

ParadisProto.h

• Added thinfilm variables to function definitions.
• Included TF.h.
• Added SemiInfiniteSegSegForce2 because of the differences between the SemiInfiniteSegSegForce in v2.3.5 cylinder code and the bulk code for v2.5.1

Topology.h

• Added thinfilm variables to function definitions.

Util.h

• Added cellIndex[3] to LocateCell() definition if _THINFILM
• Added WRITE_NODE_FORCE() if _THINFILM

AllSegmentStress.c

• No longer contained in src in v2.5.1.
• The organization of FMlayer struct has changed. Code to get FMMcell should be:

cellID = EncodeFMCellIndex(layer->lDim, cellIndex[0], cellIndex[1], cellIndex[2])
FMMcell = LookupFMCell(layer->cellTable, cellID)

AllYoffeStress.c

• added Sylvie's virtual segment changes.

Collision.c

• This code is now a calling function for PredictiveCollision.c or ProximityCollision.c
• Force collison to occur on surface
• Change SURFACE_NODE to THINFILM_SURFACE_NODE

CrossSlip.c

• Now a handler function for CrossSlipBCC.c and CrossSlipFCC.c
• Passed thinfilm variables

CrossSlipBCC.c & CrossSlipFCC.c

• THESE FUNCTIONS HAVE DRASTICALLY CHANGED IN v2.5.1. THE SECOND LOOP SHOULD PROBABLY BE UPDATED AT SOME POINT.
• Added second loop for surface nodes.
• Declared variables burg[], glidedir[][], and fnode[] because they are no longer part of src in v2.5.1
• Added nodepinned2().
• Need to be passed the thinfilm variables in order to give them to SetOneNodeForce().

DeltaPlasticStrain

• Needs to be passed thinfilm variables to give them to DeltaPlasticStrain_BCC.c or DeltaPlasticStrain_FCC.c

DeltaPlasticStrain_BCC.c & DeltaPlasticStrain_BCC.c

• Added modifications for _BENDING.

ForwardEulerIntegrator.c

• Passed thinfilm variables.

Initialize.c

• Added modifications for _STACKINGFAULT.
• Suppressed warnings about free surfaces when using thinfilm.
• Added simVol calculation for thinfilm.

InputSanity.c

• Disabled failure if there are free surfaces and not using FMM with thinfilm.

LocalSegForces.c

• Added modifications for _STACKINGFAULT.
• Added modifications for _BENDING.
• Added Sylvie's virtual segment treatment.
• Passed thinfilm variables.
• When using FULL_N2_FORCES added thinfilm remote forces.
• Added remote stress contribution from the thinfilm regardless of whether FMM is enabled

MobilityLaw_BCC_0b.c

• Constrained thinfilm surface node velocity in the z-direction to be zero.

MobilityLaw_BCC_0.c

• Added correction to BTotal for a surface node, because it is simply linked.

MobilityLaw_BCC_glide.c

• Added correction to BTotal for a surface node, because it is simply linked.
• Added correction for a thinfilm's normal constraint.

MobilityLaw_FCC_0.c

• Constrained thinfilm surface node velocity in the z-direction to be zero.
• Tried to add Laboratory coordinate system rotation (may need checked)

MobilityLaw_Relax.c

• This code was significantly changed from v2.3.5 to v2.5.1 in the src (may need checked)
• Constrained thinfilm surface node velocity in the z-direction to be zero.

NodeForce.c

• Added modifications for _STACKINGFAULT.
• Added modifications for _BENDING.
• Added Sylvie's virtual segment treatment.
• Included TF.h.
• Passed thinfilm variables.
• Added WRITE_NODE_FORCE statements.
• Called InitSegSigbRem()
• Computed thinfilm's contribution to sigbRem.
• Added a call to LocalVirtualSegForces()
• When FULL_N2_FORCES, Added hook to zero sigbRem for adding in Yoffe stress. This is already done in the bulk code, but only with FEM.
• When FULL_N2_FORCES, added remote stress calculation for thinfilm in SetOneNodeForce().
• When NOT FULL_N2, added a hook to zero sigbRem for adding in Yoffe stress. This is already done in the bulk code, but only with FEM. This one was vectorized in the bulk code.
• Calculate PK force if _THINFILM, even if FMM is not enabled. This is done in the bulk code, but for FEM.
• Added thinfilm image stress to the segment's sigb.

ParadisStep.c

• Added thinfilm variables to function definitions.

Param.c

• Added modifications for _STACKINGFAULT.
• Initialized thinfilm variables.

Plot.c

• Included Param.h and TF.h.
• Added plotting for thinfilm.

Remesh.c

• Included TF.h
• Passed thinfilm variables.
• Added call to Thinfilm_Remesh().

RemeshRule_2.c

• prevented thinfilm surface node from being removed.

Topology.c

• Added modifications for _STACKINGFAULT.
• Included TF.h.
• Passed thinfilm variables.
• Handled combining pinned multinodes at the surface.
• Handled the splitting of surface nodes.
• Changed to THINFILM_SURFACE_NODE

TrapezoidIntegrator.c

• Passed thinfilm variables.
• changed the print statement for thinfilm

SemiInfiniteSegSegForce.c

• v2.5.1 now has this within the bulk code, but there appears to be some differences from the thinfilm code in v2.3.5.
• v2.5.1 bulk code currently only computes forces on fp3 and fp4. It zeros out forces on fp1 and does not compute fp2. v2.3.5 computed all four.
• Currently call the 2.3.5 functions SemiInfiniteSegSegForce2 and SpecialSemiInfiniteSegSegForce2.

Compute.c

• Changed to SemiInfiniteSegSegForce2.

Util.c

• LocateCell() has stopped retuning cellindex in v2.5.1 and calculates the results in a different way. I have temporarily made it calculated the old way for _THINFILM.
• Added function WRITE_NODE_FORCE.
• Changing LocateCell necessitates adding Util.h to the thinfilm libraries.

ABCoeff.c

• Unique to thinfilm
• Added Sylvie's virtual segment treatment.

Fourier_transforms.c

• Unique to thinfilm
• Added Sylvie's virtual segment treatment.

TF_Main.c

• Unique to thinfilm
• Added Sylvie's virtual segment treatment.

TF_Util.c

• Unique to thinfilm
• Added Sylvie's virtual segment treatment.