Compute landscape-level metrics per zone (tiled), merge, analyze gaps, optionally fill with IDW, and write rasters

Computes a landscapemetrics metric (default "lsm_l_shdi"), optionally with extra lm_args, that yields one value per zone and per input layer. Runs tile-by-tile (by tile_field), writes per-tile rasters, merges to final per-layer GeoTIFF(s), then performs gap analysis (NA count within the template footprint and optional maximum gap width) and optional IDW gap filling via WhiteboxTools. Returns a compact data.frame with per-layer stats and timing.

Usage

landscape_function(
  landscape,
  zones = "./Templates/TemplateGrids/tikls500_sauzeme.parquet",
  id_field = "rinda500",
  tile_field = "tks50km",
  template = "./Templates/TemplateRasters/LV500m_10km.tif",
  out_dir,
  out_filename,
  out_layername,
  what = "lsm_l_shdi",
  lm_args = NULL,
  buffer_m = 1000,
  rasterize_engine = c("fasterize", "terra"),
  n_workers = 1,
  os_type = "auto",
  future_max_size = 4 * 1024^3,
  gdal_opts = c("COMPRESS=LZW", "TILED=YES", "BIGTIFF=IF_SAFER"),
  write_datatype = NULL,
  NAflag = NA_real_,
  keep_tiles = FALSE,
  skip_existing = TRUE,
  terra_memfrac = 0.7,
  terra_tempdir = tempdir(),
  terra_todisk = TRUE,
  force_gc = FALSE,
  quiet = FALSE,
  report_gaps = TRUE,
  report_gap_size = TRUE,
  fill_gaps = FALSE,
  idw_weight = 2,
  filter_size_cells = "auto",
  plot_result = FALSE,
  plot_gaps = FALSE
)

Arguments

landscape: SpatRaster or path(s) to .tif (class labels). Multi-layer supported.
zones: sf polygons or path to sfarrow GeoParquet. Default "./Templates/TemplateGrids/tikls500_sauzeme.parquet".
id_field: Zone id field (default "rinda500").
tile_field: Tiling field (default "tks50km").
template: SpatRaster or path defining target grid/CRS/cellsize. Default "./Templates/TemplateRasters/LV500m_10km.tif".
out_dir: Output directory (created if missing).
out_filename: Character vector: final filename(s) (no dir); one per input layer, matching order.
out_layername: Character vector: final layer name(s); one per input layer, matching order.
what: Landscapemetrics metric (default "lsm_l_shdi").
lm_args: Named list of extra args for landscapemetrics::sample_lsm() compatible with what.
buffer_m: Numeric buffer (m) for tile bbox before crop (default 1000).
rasterize_engine: "fasterize" (default) or "terra".
n_workers: Integer; 1 = sequential.
os_type: "auto","windows","mac","linux","slurm" (default "auto").
future_max_size: Max globals per worker (bytes); default 4 * 1024^3 (~4 GiB).
gdal_opts: GDAL creation options (merged with tuned defaults: c("COMPRESS=LZW","TILED=YES","BIGTIFF=IF_SAFER","NUM_THREADS=ALL_CPUS","BLOCKXSIZE=256","BLOCKYSIZE=256")).
write_datatype: terra datatype string; if NULL, defaults to "FLT4S".
NAflag: Numeric NA value to write; if NA/NULL, a sensible default is chosen (FLT* to -9999, INT2S to -32768, INT4S to -2147483648).
keep_tiles: Logical; keep temp tiles dir (debug). Default FALSE.
skip_existing: Logical; skip tiles/finals that already exist. Default TRUE.
terra_memfrac: terraOptions(memfrac=...). Default 0.7.
terra_tempdir: Temp dir for terra ops. Default tempdir().
terra_todisk: Logical or NA. If TRUE, prefer on-disk. Default TRUE.
force_gc: Logical; call gc() at key checkpoints. Default FALSE.
quiet: Suppress progress prints (cat())? Default FALSE.
report_gaps: Logical; print/compute gap_count. Default TRUE.
report_gap_size: Logical; compute/print maximum gap width (expensive). Default TRUE.
fill_gaps: Logical; run Whitebox IDW fill if gaps exist. Default FALSE.
idw_weight: Numeric; IDW power for Whitebox fill. Default 2.
filter_size_cells: Integer or "auto"; Whitebox window size (cells). Default "auto".
plot_result: Logical; plot final per-layer raster(s). Default FALSE.
plot_gaps: Logical; plot gap map(s) (1 = NA inside template). Default FALSE.

Value

A data.frame (one row per layer) with:

layer_name, output_path,
tiles_written, tiles_skipped_existing, tiles_skipped_empty_crop, tiles_skipped_empty_join,
merge_skipped, gap_count, max_gap_distance, filter_size_cells_used, gap_filled,
n_tiles, n_zones, n_layers, elapsed_sec. Attributes: "tile_dir" (path or NULL), "run_params" (list).

Details

Workflow

Inputs & CRS
- Accept paths or in-memory (SpatRaster, sf). Zones and landscape are aligned to the template CRS/grid.
Tiling
- Split zones by tile_field; process each tile independently.
Per-tile (all layers)
- Quick extent crop (buffered by buffer_m), landscapemetrics::sample_lsm() per layer, join back by id_field, rasterize (engine: "fasterize" or "terra"), mask to template crop, and write tile raster. Skips empty crops/joins cleanly.
Merge per layer
- VRT over all tile rasters to final GeoTIFF with tuned GDAL options (LZW, tiling, BIGTIFF=IF_SAFER, threads).
- CRS is forced to the template WKT so crs(output) == crs(template) string-matches.
Gap analysis & optional fill (per layer)
- gap_count: number of NA cells inside the template footprint.
- If report_gap_size=TRUE or filter_size_cells="auto", compute max gap width (distance to nearest non-NA).
- If fill_gaps=TRUE and gaps exist, fill with whitebox::wbt_fill_missing_data() using idw_weight and filter_size_cells (or auto from the max gap width; odd, >=3).
- Plot result and/or gaps if requested (side-by-side if both).
Return
- One row per output layer with paths, tile counters, gap stats, fill parameters, and elapsed seconds.

Examples