* using log directory ‘/srv/hornik/tmp/CRAN_pretest/SLOS.Rcheck’
* using R Under development (unstable) (2024-12-17 r87446)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.1 (1)
    Debian flang-new version 19.1.1 (1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘SLOS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SLOS’ version ‘1.0.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [3s/4s] NOTE
Maintainer: ‘Joana da Matta <joana.damatta02@gmail.com>’

New submission

Possibly misspelled words in DESCRIPTION:
  Peres (16:48, 16:214, 16:417)
  SLOSR (16:470)
  SRU (16:527)
  al (16:57, 16:223, 16:426)
  et (16:54, 16:220, 16:423)
  multicentre (16:296)
* 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 ‘SLOS’ can be installed ... [25s/100s] WARNING
Found the following significant warnings:
  Warning: namespace ‘caret’ is not available and has been replaced
  Warning: namespace ‘caretEnsemble’ is not available and has been replaced
See ‘/srv/hornik/tmp/CRAN_pretest/SLOS.Rcheck/00install.out’ for details.
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... NOTE
Author field differs from that derived from Authors@R
  Author:    ‘Igor Peres’
  Authors@R: ‘Igor Peres [aut], Joana da Matta [cre]’

* checking top-level files ... NOTE
Non-standard file/directory found at top level:
  ‘cran-comments.md’
* 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 ... [1s/1s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
* checking loading without being on the library search path ... [1s/1s] 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 ... [3s/3s] NOTE
SLOS: no visible global function definition for ‘%>%’
SLOS: no visible binding for global variable ‘UnitCode’
SLOS: no visible binding for global variable ‘soma_los_obs’
SLOS: no visible binding for global variable ‘soma_los_esp’
predict_and_evaluate: no visible global function definition for
  ‘predict’
predict_and_evaluate: no visible binding for global variable
  ‘small_model’
Undefined global functions or variables:
  %>% UnitCode predict small_model soma_los_esp soma_los_obs
Consider adding
  importFrom("stats", "predict")
to your NAMESPACE file.

Found the following calls to data() loading into the global environment:
File ‘SLOS/R/02-Prediction.R’:
  data("SampledData", package = "SLOS")
See section ‘Good practice’ in ‘?data’.
* checking Rd files ... [0s/0s] 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... [0s/0s] OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [24s/83s] ERROR
  Running ‘testthat.R’ [24s/83s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(SLOS)
  > 
  > test_check("SLOS")
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 2 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-Evaluation.R:5:3'): SLOS generates expected outputs ────────────
  Error in `UseMethod("predict")`: no applicable method for 'predict' applied to an object of class "caretStack"
  Backtrace:
      ▆
   1. ├─base::suppressWarnings(SLOS::SLOS(mock_data)) at test-Evaluation.R:5:3
   2. │ └─base::withCallingHandlers(...)
   3. └─SLOS::SLOS(mock_data)
   4.   └─SLOS::predict_and_evaluate(data)
   5.     └─stats::predict(small_model, newdata = data)
  ── Error ('test-Prediction.R:3:3'): predict_and_evaluate works as expected ─────
  Error in `UseMethod("predict")`: no applicable method for 'predict' applied to an object of class "caretStack"
  Backtrace:
      ▆
   1. └─SLOS::predict_and_evaluate(sampled_data) at test-Prediction.R:3:3
   2.   └─stats::predict(small_model, newdata = data)
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 2 ]
  Error: Test failures
  Execution halted
* checking PDF version of manual ... [2s/2s] OK
* checking HTML version of manual ... [0s/0s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 ERROR, 1 WARNING, 4 NOTEs