* using log directory 'd:/Rcompile/CRANpkg/local/4.6/EcoCleanR.Rcheck'
* using R Under development (unstable) (2025-12-16 r89184 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'EcoCleanR/DESCRIPTION' ... OK
* this is package 'EcoCleanR' version '1.0.1'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'EcoCleanR' can be installed ... OK
* checking installed package size ... OK
* 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 ... [9s] OK
* checking whether the package can be loaded with stated dependencies ... [9s] OK
* checking whether the package can be unloaded cleanly ... [8s] OK
* checking whether the namespace can be loaded with stated dependencies ... [8s] OK
* checking whether the namespace can be unloaded cleanly ... [9s] OK
* checking loading without being on the library search path ... [9s] 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 ... [20s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... [1s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [36s] ERROR
Running examples in 'EcoCleanR-Ex.R' failed
The error most likely occurred in:

> ### Name: ec_geographic_map
> ### Title: Map view of occurrence data points
> ### Aliases: ec_geographic_map
> 
> ### ** Examples
> 
> data <- data.frame(
+   scientificName = "Mexacanthina lugubris",
+   decimalLongitude = c(-117, -117.8, -116.9),
+   decimalLatitude = c(32.9, 33.5, 31.9),
+   temperature_mean = c(12, 13, 14),
+   temperature_min = c(9, 6, 10),
+   temperature_max = c(14, 16, 18)
+ )
> ec_geographic_map(data,
+   latitude = "decimalLatitude",
+   longitude = "decimalLongitude"
+ )
The geodata server is temporary out of service for maintenance. It should be back on 20 December. 
Error: unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [204s] ERROR
  Running 'testthat.R' [204s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(EcoCleanR)
  > 
  > test_check("EcoCleanR")
  ==  1 queries  ===============
  
  Retrieving data for taxon 'Mexacanthina lugubris'
  
  ✔  Found:  Mexacanthina lugubris
  ==  Results  =================
  
  • Total: 1 
  • Found: 1 
  • Not Found: 0
  Suggested threshold at 96th percentile: 8801832
  Extracting BO_sstmean...
  Imputation iteration 1
  Imputation iteration 2
  No more missing values to impute.
  The geodata server is temporary out of service for maintenance. It should be back on 20 December. 
  Saving _problems/test-data_cleaning-294.R
  The geodata server is temporary out of service for maintenance. It should be back on 20 December. 
  Saving _problems/test-data_cleaning-329.R
  [ FAIL 2 | WARN 0 | SKIP 3 | PASS 30 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • Skipping ec_flag_non_east_atlantic test - big shape files required to load
    for it (1): 'test-data_cleaning.R:417:3'
  • Skipping ec_flag_non_west_atlantic test - big shape files required to load
    for it (1): 'test-data_cleaning.R:438:3'
  • Skipping ec_flag_non_west_pacific test - big shape files required to load for
    it (1): 'test-data_cleaning.R:459:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-data_cleaning.R:290:3'): ec_geographic_map_w_flag works ────────
  Error: unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
  Backtrace:
      ▆
   1. └─EcoCleanR::ec_geographic_map_w_flag(...) at test-data_cleaning.R:290:3
   2.   └─terra::crop(x = world_map, y = geographic_extent)
   3.     └─methods (local) `<fn>`(`<list>`, `<stndrdGn>`, `<env>`)
  ── Error ('test-data_cleaning.R:326:3'): ec_geographic_map works ───────────────
  Error: unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
  Backtrace:
      ▆
   1. └─EcoCleanR::ec_geographic_map(...) at test-data_cleaning.R:326:3
   2.   └─terra::crop(x = world_map, y = geographic_extent)
   3.     └─methods (local) `<fn>`(`<list>`, `<stndrdGn>`, `<env>`)
  
  [ FAIL 2 | WARN 0 | SKIP 3 | PASS 30 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [75s] ERROR
Error(s) in re-building vignettes:
--- re-building 'data_cleaning.Rmd' using rmarkdown

Quitting from data_cleaning.Rmd:68-73 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
---
Backtrace:
    ▆
 1. └─EcoCleanR::ec_geographic_map(...)
 2.   └─terra::crop(x = world_map, y = geographic_extent)
 3.     └─methods (local) `<fn>`(`<list>`, `<stndrdGn>`, `<env>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'data_cleaning.Rmd' failed with diagnostics:
unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
--- failed re-building 'data_cleaning.Rmd'

--- re-building 'data_merging.Rmd' using rmarkdown

Quitting from data_merging.Rmd:141-147 [unnamed-chunk-8]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
---
Backtrace:
    ▆
 1. └─EcoCleanR::ec_geographic_map(Mixdb.occ, "decimalLatitude", longitude = "decimalLongitude")
 2.   └─terra::crop(x = world_map, y = geographic_extent)
 3.     └─methods (local) `<fn>`(`<list>`, `<stndrdGn>`, `<env>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'data_merging.Rmd' failed with diagnostics:
unable to find an inherited method for function 'crop' for signature 'x = "NULL"'
--- failed re-building 'data_merging.Rmd'

SUMMARY: processing the following files failed:
  'data_cleaning.Rmd' 'data_merging.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [19s] OK
* checking HTML version of manual ... [6s] OK
* DONE
Status: 3 ERRORs