t_vol *init_get_volume_from_minc_file(char *path)
{
t_vol *volume;
int result;
volume = malloc(sizeof(*volume));
volume->path = path;
volume->dim_nb = 3;
if (volume->path == NULL)
return (NULL);
// open the minc file
if ((result = miopen_volume(volume->path, MI2_OPEN_READ, &volume->minc_volume)) != MI_NOERROR)
{
fprintf(stderr, "Error opening input file: %d.\n", result);
return (NULL);
}
if ((result = miget_volume_dimension_count(volume->minc_volume, 0, 0, &volume->dim_nb)) != MI_NOERROR)
{
fprintf(stderr, "Error getting number of dimensions: %d.\n", result);
return (NULL);
}
volume->dimensions = malloc(volume->dim_nb * sizeof(*volume->dimensions));
volume->starts = malloc(volume->dim_nb * sizeof(*volume->starts));
volume->steps = malloc(volume->dim_nb * sizeof(*volume->steps));
volume->size = malloc(volume->dim_nb * sizeof(*volume->size));
volume->dim_name = malloc(volume->dim_nb * sizeof(*volume->dim_name));
// get the volume dimensions
if ((result = miget_volume_dimensions(volume->minc_volume, MI_DIMCLASS_SPATIAL, MI_DIMATTR_ALL,
MI_DIMORDER_FILE, volume->dim_nb, volume->dimensions)) == MI_ERROR)
{
fprintf(stderr, "Error getting dimensions: %d.\n", result);
return (NULL);
}
// get the size of each dimensions
if ((result = miget_dimension_size(volume->dimensions[0], &volume->size[0])) != MI_NOERROR)
{
fprintf(stderr, "Error getting dimensions size: %d.\n", result);
return (NULL);
}
if ((result = miget_dimension_size(volume->dimensions[1], &volume->size[1])) != MI_NOERROR)
{
fprintf(stderr, "Error getting dimensions size: %d.\n", result);
return (NULL);
}
if ((result = miget_dimension_size(volume->dimensions[2], &volume->size[2])) != MI_NOERROR)
{
fprintf(stderr, "Error getting dimensions size: %d.\n", result);
return (NULL);
}
if ((result = miget_dimension_starts(volume->dimensions, 0, volume->dim_nb, volume->starts)) != MI_NOERROR)
{
fprintf(stderr, "Error getting dimensions start: %d.\n", result);
return (NULL);
}
if ((result = miget_dimension_separations(volume->dimensions, 0, volume->dim_nb, volume->steps)) != MI_NOERROR)
{
fprintf(stderr, "Error getting dimensions steps: %d.\n", result);
return (NULL);
}
if (miget_dimension_name (volume->dimensions[0], &volume->dim_name[0]) != MI_NOERROR ||
miget_dimension_name (volume->dimensions[1], &volume->dim_name[1]) != MI_NOERROR ||
miget_dimension_name (volume->dimensions[2], &volume->dim_name[2]))
{
fprintf(stderr, "Error getting dimensions name.\n");
return (NULL);
}
// get slices_max
volume->slices_max = get_slices_max(volume);
volume->next = NULL;
return (volume);
}
void MINCResource::Load() {
if (loaded) return;
int result = miopen_volume(file.c_str(), MI2_OPEN_READ, &handle);
if (result != MI_NOERROR) {
logger.warning << "Error opening the MINC input file: " << file << logger.end;
return;
}
// char** names = new char*[3];
// names[0] = "x_space";
// names[1] = "y_space";
// names[2] = "z_space";
// miset_apparent_dimension_order_by_name(handle, 3, names);
int count;
miget_volume_voxel_count(handle, &count);
logger.info << "voxel count: " << count << logger.end;
// atomic type of the resulting texture (float, int)
miclass_t klass;
miget_data_class(handle, &klass);
logger.info << "data class: " << klass << logger.end;
// data type of a voxel (float, uchar, ...)
// convert this type into class type by scaling.
mitype_t type;
miget_data_type(handle, &type);
logger.info << "voxel type: " << type << logger.end;
misize_t vsize;
miget_data_type_size(handle, &vsize);
logger.info << "voxel size in bytes: " << vsize << logger.end;
midimhandle_t dims[3];
result = miget_volume_dimensions(handle, MI_DIMCLASS_SPATIAL,
MI_DIMATTR_ALL, MI_DIMORDER_FILE,
3, dims);
if (result != 3) {
logger.warning << "Only three spatial dimensions supported. Volume has " << result << logger.end;
return;
}
w = h = d = 0;
// hack: in our files dimensions are given in z,y,x order, so we reverse it.
miget_dimension_size(dims[0], &w);
miget_dimension_size(dims[1], &h);
miget_dimension_size(dims[2], &d);
// midimhandle_t* dims_app = new midimhandle_t[3];
// dims_app[0] = dims[2];
// dims_app[1] = dims[1];
// dims_app[2] = dims[0];
// miset_apparent_dimension_order (handle, 3, dims_app);
logger.info << "dimensions: " << w << " x " << h << " x " << d << logger.end;
// count records
int recs = 0;
miget_record_length(handle, &recs);
logger.info << "record length: " << recs << logger.end;
// count labels
int lbls = 0;
miget_number_of_defined_labels(handle, &lbls);
logger.info << "# of labels: " << lbls << logger.end;
// count attributes
milisthandle_t lhandle;
milist_start(handle, "", 0, &lhandle);
char* path = new char[255];
char* name = new char[255];
while (milist_attr_next(handle, lhandle, path, 255, name, 255) == MI_NOERROR) {
logger.info << "path: " << string(path) << " name: " << string(name) << logger.end;
}
milist_finish(lhandle);
delete path;
delete name;
// char* nm;
// miget_dimension_name(dims[2], &nm);
// string hest(nm);
// mifree_name(nm);
// logger.info << "dimension name: " << hest << logger.end;
char* space_name;
miget_space_name(handle, &space_name);
logger.info << "space name: " << string(space_name) << logger.end;
mifree_name(space_name);
loaded = true;
}
