The hopefully final batch of necessary header files

config.h

@@ -0,0 +1,11 @@
+/* config.h.  Generated automatically by configure.  */
+/* config.h.in.  Generated automatically from configure.ac by autoheader.  */
+
+/* Define if you have the <dlfcn.h> header file. */
+#define HAVE_DLFCN_H 1
+
+/* Name of package */
+#define PACKAGE "conglomerate"
+
+/* Version number of package */
+#define VERSION "1.0"

configure.ac

@@ -14,6 +14,8 @@ AC_PROG_MAKE_SET
 AC_PROG_CC
 AC_PROG_CXX
 
+AM_PROG_LIBTOOL
+
 mni_REQUIRE_BICPL
 
 # check for special header files needed

deform.h

@@ -0,0 +1,145 @@
+#ifndef  DEF_DEFORM
+#define  DEF_DEFORM
+
+#include  <bicpl.h>
+
+typedef  enum  { TOWARDS_LOWER, TOWARDS_HIGHER, ANY_DIRECTION }
+               Normal_directions;
+
+typedef  struct
+{
+    Real               min_isovalue;
+    Real               max_isovalue;
+    Real               gradient_threshold;
+    Real               min_dot_product;
+    Real               max_dot_product;
+    Normal_directions  normal_direction;
+    Real               tolerance;
+} boundary_definition_struct;
+
+typedef  enum  { VOLUME_DATA }  Deform_data_types;
+
+typedef  struct
+{
+    Deform_data_types   type;
+    Volume              volume;
+    Volume              label_volume;
+} deform_data_struct;
+
+typedef  enum { FLAT_MODEL, AVERAGE_MODEL,
+                PARAMETRIC_MODEL, GENERAL_MODEL }
+                Deformation_model_types;
+
+typedef  struct
+{
+    int                       up_to_n_points;
+
+    Deformation_model_types   model_type;
+    Real                      model_weight;
+    object_struct             *model_object;
+
+    int                       n_model_points;
+    Point                     *model_centroids;
+    Vector                    *model_normals;
+    Point                     *model_points;
+
+    Real                      min_curvature_offset;
+    Real                      max_curvature_offset;
+} deform_model_struct;
+
+typedef  struct
+{
+    int                       n_models;
+    deform_model_struct       *models;
+    BOOLEAN                   position_constrained;
+    Real                      max_position_offset;
+    Point                     *original_positions;
+} deformation_model_struct;
+
+typedef  struct
+{
+    deform_data_struct            deform_data;
+    deformation_model_struct      deformation_model;
+    Real                          fractional_step;
+    Real                          max_step;
+    Real                          max_search_distance;
+    int                           degrees_continuity;
+    boundary_definition_struct    boundary_definition;
+    int                           max_iterations;
+    Real                          stop_threshold;
+
+    int                           n_movements_alloced;
+    float                         *prev_movements;
+    Real                          movement_threshold;
+} deform_struct;
+
+#define  MAX_IN_VOXEL_COEF_LOOKUP  10000
+
+typedef  struct  voxel_lin_coef_struct
+{
+    int                               hash_key;
+    Real                              coefs[8];
+    struct     voxel_lin_coef_struct  *prev;
+    struct     voxel_lin_coef_struct  *next;
+}
+voxel_lin_coef_struct;
+
+typedef struct
+{
+    hash_table_struct      hash;
+    int                    n_in_hash;
+    voxel_lin_coef_struct  *head;
+    voxel_lin_coef_struct  *tail;
+} voxel_coef_struct;
+
+#define  N_DEFORM_HISTOGRAM   7
+
+typedef struct
+{
+    Real    average;
+    Real    maximum;
+    int     n_below[N_DEFORM_HISTOGRAM];
+} deform_stats;
+
+typedef struct
+{
+    int                  axis;
+    Point                *save_points;
+    Real                 *curvature_factors;
+    Point                *equilibrium_points;
+    Point                *new_equilibrium_points;
+    Point                *boundary_points;
+    Point                *new_boundary_points;
+    Real                 temperature;
+    Real                 temperature_factor;
+    int                  temperature_step;
+    int                  min_n_to_move;
+    int                  max_n_to_move;
+    Real                 max_translation;
+    Real                 max_angle_rotation;
+    Real                 max_scale_offset;
+    int                  stop_criteria;
+    int                  try;
+    int                  max_tries;
+    int                  max_successes;
+    int                  n_successes;
+    int                  n_pos_successes;
+    int                  n_no_moves;
+    Real                 min_delta_energy;
+    Real                 max_delta_energy;
+    Real                 energy;
+} anneal_struct;
+
+#ifndef  public
+#define       public   extern
+#define       public_was_defined_here
+#endif
+
+#include  <deform_prototypes.h>
+
+#ifdef  public_was_defined_here
+#undef       public
+#undef       public_was_defined_here
+#endif
+
+#endif