* using log directory ‘/data/gannet/ripley/R/packages/tests-Suggests/lidR.Rcheck’
* using R Under development (unstable) (2024-04-19 r86451)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-13 (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Fedora Linux 36 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘lidR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘lidR’ version ‘4.1.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘lidR’ can be installed ... [283s/248s] OK
* used C++ compiler: ‘g++-13 (GCC) 13.2.0’
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [13s/17s] OK
* checking whether the package can be loaded with stated dependencies ... [12s/17s] OK
* checking whether the package can be unloaded cleanly ... [13s/17s] OK
* checking whether the namespace can be loaded with stated dependencies ... [13s/17s] OK
* checking whether the namespace can be unloaded cleanly ... [14s/16s] OK
* checking loading without being on the library search path ... [14s/18s] OK
* checking whether startup messages can be suppressed ... [13s/16s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [104s/133s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [19s/30s] ERROR
Running examples in ‘lidR-Ex.R’ failed
The error most likely occurred in:

> ### Name: catalog_boundaries
> ### Title: Computes the polygon that encloses the points
> ### Aliases: catalog_boundaries
> 
> ### ** Examples
> 
> LASfile <- system.file("extdata", "Megaplot.laz", package="lidR")
> ctg <- readLAScatalog(LASfile, filter = "-drop_z_below 0.5")
> ctg2 <- catalog_boundaries(ctg, concavity = 1, length_threshold = 15)
Chunk 1 of 1 (100%): state ✓
> plot(ctg)
> plot(ctg2, add = TRUE)
Error in (function (cond)  : 
  error in evaluating the argument 'x' in selecting a method for function 'plot': there is no package called ‘sp’
Calls: plot ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [81s/100s]
 [82s/101s] ERROR
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  > library(lidR)
  > test_check("lidR")
  Tests using raster: terra 
  Tests using future: FALSE 
  Tests using OpenMP thread: 1 
  OGR: Unsupported geometry type
  OGR: Unsupported geometry type
  Chunk 1 of 1 (100%): state ✓
  [ FAIL 2 | WARN 0 | SKIP 71 | PASS 1183 ]
  
  ══ Skipped tests (71) ══════════════════════════════════════════════════════════
  • EBImage cannot be loaded (3): 'test-segment_trees.R:117:3',
    'test-segment_trees.R:220:3', 'test-segment_trees.R:247:3'
  • On CRAN (32): 'test-apply_automerge.R:196:3', 'test-apply_automerge.R:217:3',
    'test-apply_automerge.R:229:3', 'test-apply_automerge.R:263:3',
    'test-apply_automerge.R:274:3', 'test-apply_autoread.R:3:3',
    'test-apply_generic.R:22:3', 'test-apply_generic.R:108:3',
    'test-catalog_laxindex.R:4:3', 'test-classify_poi.R:21:3',
    'test-concaveman.R:15:3', 'test-concaveman.R:64:3',
    'test-fullwaveform.R:2:3', 'test-generic_local_maximum.R:2:3',
    'test-metrics_crowns.R:31:3', 'test-metrics_crowns.R:122:3',
    'test-plot.R:7:3', 'test-plot.R:15:3', 'test-plot.R:49:3',
    'test-plot.R:73:3', 'test-plot.R:79:3', 'test-plot.R:86:3',
    'test-plot.R:93:3', 'test-plot.R:100:3', 'test-plot.R:107:3',
    'test-plot.R:118:3', 'test-rasterize_canopy.R:66:3',
    'test-rasterize_terrain.R:145:3', 'test-segment_snags.R:27:2',
    'test-segment_trees.R:73:3', 'test-track_sensor.R:45:3',
    'test-voxelize_points.R:15:3'
  • geometry cannot be loaded (5): 'test-delaunay.R:22:3',
    'test-delaunay.R:68:3', 'test-delaunay.R:146:3',
    'test-rasterize_terrain.R:155:3', 'test-roughness.R:3:1'
  • gstat cannot be loaded (2): 'test-normalize_height.R:30:3',
    'test-rasterize_terrain.R:65:3'
  • raster cannot be loaded (15): 'test-apply_automerge.R:79:3',
    'test-apply_automerge.R:98:3', 'test-apply_automerge.R:117:5',
    'test-apply_automerge.R:319:3', 'test-apply_automerge.R:334:3',
    'test-locate_trees.R:50:3', 'test-merges_spatial.R:116:3',
    'test-merges_spatial.R:136:3', 'test-metrics_pixels.R:178:3',
    'test-metrics_pixels.R:240:3', 'test-rasterize_canopy.R:20:3',
    'test-rasterize_density.R:35:3', 'test-rasterize_terrain.R:34:3',
    'test-segment_trees.R:228:3', 'test-segment_trees.R:237:3'
  • sp cannot be loaded (14): 'test-LAS.R:245:3', 'test-LAScatalog.R:27:3',
    'test-apply_automerge.R:162:3', 'test-apply_automerge.R:182:3',
    'test-clip.R:96:3', 'test-locate_trees.R:30:3', 'test-merges_spatial.R:15:3',
    'test-metrics_crowns.R:80:3', 'test-metrics_crowns.R:88:3',
    'test-metrics_crowns.R:104:3', 'test-projection.R:70:4',
    'test-projection.R:75:3', 'test-projection.R:81:3', 'test-projection.R:106:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-classify_ground.R:15:1'): (code run outside of `test_that()`) ──
  Error: Package 'RCSF' needed for this function to work. Please install it.
  Backtrace:
      ▆
   1. └─lidR::csf(TRUE, 1, 1, time_step = 1) at test-classify_ground.R:15:1
   2.   └─lidR:::assert_package_is_installed("RCSF")
  ── Error ('test-print.R:69:3'): print works with lidR algorithms  ──────────────
  Error: Package 'RCSF' needed for this function to work. Please install it.
  Backtrace:
      ▆
   1. └─lidR::csf() at test-print.R:69:3
   2.   └─lidR:::assert_package_is_installed("RCSF")
  
  [ FAIL 2 | WARN 0 | SKIP 71 | PASS 1183 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [80s/105s] OK
* checking PDF version of manual ... [16s/21s] OK
* checking HTML version of manual ... [8s/14s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 2 ERRORs
See
  ‘/data/gannet/ripley/R/packages/tests-Suggests/lidR.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 17:05.37, 827.52 + 43.99