converted 4 more fix_modify atc commands

doc/src/atc_mesh_add_to_nodeset.rst

@@ -0,0 +1,44 @@
+.. index:: fix_modify AtC mesh add_to_nodeset
+
+fix_modify AtC mesh add_to_nodeset command
+==========================================
+
+Syntax
+""""""
+
+.. parsed-literal::
+
+   fix_modify <AtC fixID> mesh add_to_nodeset <id> <xmin> <xmax> <ymin> <ymax> <zmin> <zmax>
+
+* AtC fixID = ID of :doc:`fix atc <fix_atc>` instance
+* mesh create\_nodeset = name of the AtC sub-command
+* id = id to assign to the collection of FE nodes
+* <xmin> <xmax> <ymin> <ymax> <zmin> <zmax> = coordinates of the bounding box that contains the desired nodes to be added
+
+Examples
+""""""""
+
+.. code-block:: LAMMPS
+
+   fix_modify AtC mesh add_to_nodeset lbc -12.1 -11.9 -12 12 -12 12
+
+Description
+"""""""""""
+
+Command to add nodes to an already existing FE nodeset.
+
+Restrictions
+""""""""""""
+
+None
+
+Related AtC commands
+""""""""""""""""""""
+
+:doc:`fix_modify AtC mesh create_nodeset <atc_mesh_create_nodeset>`
+
+
+Default
+"""""""
+
+Coordinates are assumed to be in lattice units.

doc/src/atc_mesh_create_faceset_box.rst

@@ -0,0 +1,48 @@
+.. index:: fix_modify AtC mesh create_faceset box
+
+fix_modify AtC mesh create_faceset box command
+==============================================
+
+Syntax
+""""""
+
+.. parsed-literal::
+
+   fix_modify <AtC fixID> mesh create_faceset <id> box <xmin> <xmax> <ymin> <ymax> <zmin> <zmax> <in|out> [units]
+
+* AtC fixID = ID of :doc:`fix atc <fix_atc>` instance
+* mesh create\_faceset = name of the AtC sub-command
+* id = id to assign to the collection of FE faces
+* box = use bounding box to define FE faces
+* <xmin> <xmax> <ymin> <ymax> <zmin> <zmax> = coordinates of the bounding box that is coincident with the desired FE faces
+* <in|out> = "in" gives inner faces to the box, "out" gives the outer faces to the box
+* units = option to specify real as opposed to lattice units
+
+
+Examples
+""""""""
+
+.. code-block:: LAMMPS
+
+   fix_modify AtC mesh create_faceset obndy box -4.0 4.0 -12 12 -12 12 out
+
+
+Description
+"""""""""""
+
+Command to assign an id to a set of FE faces.
+
+Restrictions
+""""""""""""
+
+Only viable for rectangular grids.
+
+Related AtC commands
+""""""""""""""""""""
+
+:doc:`fix_modify AtC mesh create_faceset plane <atc_mesh_create_faceset_plane>`
+
+Default
+"""""""
+
+The default options are units = lattice and the use of outer faces.

doc/src/atc_mesh_create_faceset_plane.rst

@@ -0,0 +1,47 @@
+.. index:: fix_modify AtC mesh create_faceset plane
+
+fix_modify AtC mesh create_faceset plane command
+================================================
+
+Syntax
+""""""
+
+.. parsed-literal::
+
+   fix_modify <AtC fixID> mesh create_faceset <id> plane <x|y|z> <val1> <x|y|z> <lval2> <uval2> [units]
+
+* AtC fixID = ID of :doc:`fix atc <fix_atc>` instance
+* mesh create\_faceset = name of the AtC sub-command
+* id = id to assign to the collection of FE faces
+* plane = use plane to define faceset
+* <val1>,<lval2>,<uval2> = plane is specified as the x|y|z=val1 plane bounded by the segments x|y|z = [lval2,uval2]
+* units = option to specify real as opposed to lattice units
+
+
+Examples
+""""""""
+
+.. code-block:: LAMMPS
+
+   fix_modify AtC mesh create_faceset xyplane plane y 0 x -4 0
+
+
+Description
+"""""""""""
+
+Command to assign an id to a set of FE faces.
+
+Restrictions
+""""""""""""
+
+Only viable for rectangular grids.
+
+Related AtC commands
+""""""""""""""""""""
+
+:doc:`fix_modify AtC mesh create_faceset box <atc_mesh_create_faceset_box>`
+
+Default
+"""""""
+
+The default options are units = lattice.

doc/src/atc_mesh_create_nodeset.rst

@@ -36,8 +36,7 @@ None
 Related AtC commands
 """"""""""""""""""""
 
-:doc:`fix_modify AtC mesh create <atc_mesh_create>`
+:doc:`fix_modify AtC mesh add_to_nodeset <atc_mesh_add_to_nodeset>`
-:doc:`fix_modify AtC mesh read <atc_mesh_read>`
 
 Default
 """""""

doc/src/fix_atc.rst

@@ -154,9 +154,9 @@ conditions.
 * :doc:`fix_modify AtC mesh read <atc_mesh_read>`
 * :doc:`fix_modify AtC mesh write <atc_mesh_write>`
 * :doc:`fix_modify AtC mesh create_nodeset <atc_mesh_create_nodeset>`
-* `fix_modify AtC mesh add_to_nodeset <USER/atc/man_mesh_add_to_nodeset.html>`_
+* :doc:`fix_modify AtC mesh add_to_nodeset <atc_mesh_add_to_nodeset>`
-* `fix_modify AtC mesh create_faceset box <USER/atc/man_mesh_create_faceset_box.html>`_
+* :doc:`fix_modify AtC mesh create_faceset box <atc_mesh_create_faceset_box>`
-* `fix_modify AtC mesh create_faceset plane <USER/atc/man_mesh_create_faceset_plane.html>`_
+* :doc:`fix_modify AtC mesh create_faceset plane <atc_mesh_create_faceset_plane>`
 * `fix_modify AtC mesh create_elementset <USER/atc/man_mesh_create_elementset.html>`_
 * `fix_modify AtC mesh delete_elements <USER/atc/man_mesh_delete_elements.html>`_
 * `fix_modify AtC mesh nodeset_to_elementset <USER/atc/man_mesh_nodeset_to_elementset.html>`_

doc/utils/sphinx-config/false_positives.txt

@@ -845,6 +845,7 @@ extrema
 exy
 ey
 ez
+faceset
 factorizable
 factorizations
 Fahrenberger
@@ -1583,6 +1584,7 @@ lucy
 Luding
 Lussetti
 Lustig
+lval
 lwsock
 lx
 ly
@@ -1980,6 +1982,7 @@ Nocedal
 nocite
 nocoeff
 nodeless
+nodeset
 Noehring
 noforce
 Noid
@@ -3020,6 +3023,7 @@ util
 utils
 utsa
 Uttormark
+uval
 uvm
 uwo
 Uzdin
@@ -3180,6 +3184,7 @@ xmax
 Xmax
 xmgrace
 xMIC
+xmin
 xmovie
 Xmovie
 xmu
@@ -3213,6 +3218,8 @@ yhi
 yi
 ylat
 ylo
+ymax
+ymin
 Yoshida
 ys
 ysu
@@ -3246,6 +3253,8 @@ Ziegenhain
 Zj
 zlim
 zlo
+zmax
+zmin
 zmq
 zN
 zs