* using log directory ‘/srv/hornik/tmp/CRAN_pretest/rcdk.Rcheck’
* using R Under development (unstable) (2025-09-10 r88809)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (3+b1)
    Debian flang-new version 19.1.7 (3+b1)
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* checking for file ‘rcdk/DESCRIPTION’ ... OK
* this is package ‘rcdk’ version ‘3.8.2’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/11s] NOTE
Maintainer: ‘Zachary Charlop-Powers <zach.charlop.powers@gmail.com>’

Unknown, possibly misspelled, fields in DESCRIPTION:
  ‘Remotes’

Suggests or Enhances not in mainstream repositories:
  depict

Found the following (possibly) invalid URLs:
  URL: http://butane.chem.uiuc.edu/jsmoore/marvin/help/formats/cxsmiles-doc.html
    From: man/smiles.flavors.Rd
          inst/doc/rcdk.html
    Status: 404
    Message: Not Found
  URL: http://github.com/cdk (moved to https://github.com/cdk)
    From: inst/doc/Features_29.html
    Status: 301
    Message: Moved Permanently
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package suggested but not available for checking: ‘depict’
* 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 serialization versions ... OK
* checking whether package ‘rcdk’ can be installed ... [4s/3s] OK
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [1s/1s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the package can be unloaded cleanly ... [1s/1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/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 whether startup messages can be suppressed ... [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 ... [6s/5s] OK
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [4s/2s] NOTE
Examples with CPU time > 2.5 times elapsed time
                 user system elapsed ratio
get.fingerprint 1.271  0.097   0.214 6.393
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [9s/3s] NOTE
  Running ‘doRUnit.R’ [9s/2s]
Running R code in ‘doRUnit.R’ had CPU time 3.6 times elapsed time
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [15s/10s] ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘Features_29.Rmd’ using rmarkdown

Quitting from Features_29.Rmd:26-52 [setup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'depict'
---
Backtrace:
    ▆
 1. └─base::library(depict)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'Features_29.Rmd' failed with diagnostics:
there is no package called 'depict'
--- failed re-building ‘Features_29.Rmd’

--- re-building ‘PerformanceNotes.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘PerformanceNotes.Rmd’

--- re-building ‘molform.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘molform.Rmd’

--- re-building ‘rcdk.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘rcdk.Rmd’

SUMMARY: processing the following file failed:
  ‘Features_29.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [4s/4s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 ERROR, 3 NOTEs