* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/worms.Rcheck’
* using R Under development (unstable) (2023-04-28 r84338)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)
    GNU Fortran (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)
* running under: Fedora 34 (Workstation Edition)
* using session charset: UTF-8
* checking for file ‘worms/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘worms’ version ‘0.2.2’
* 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 ‘worms’ can be installed ... OK
* checking package 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking examples with --run-donttest ... [1s/10s] ERROR
Running examples in ‘worms-Ex.R’ failed
The error most likely occurred in:

> ### Name: wormsbynames
> ### Title: GET AphiaRecordsByNames
> ### Aliases: wormsbynames
> 
> ### ** Examples
> 
> taxon_names <- c( "Westwodilla caecula" ,  "Abra alba", "Chaetozone cf. setosa",  "Algae" )
> w <- wormsbynames(taxon_names)
REQUESTING 4 ITEMS BY NAME from World Register of Marine Species (www.marinespecies.org), 29/04/2023 08:40:26 (CC-BY)
                                                     chunk 1/1 
Westwodilla caecula                                  no match                                 
Chaetozone cf. setosa                                no match                                 
Algae                                                no match                                 
by names ........................................... DONE
> ## print unrecognized returns
> failed_species <- rownames(w[is.na(w[,1]),])
> 
> ## try again with fuzzy matching turned on
> ## No test: 
> w <- wormsbynames(taxon_names, match=TRUE)
REQUESTING 4 ITEMS BY NAME from World Register of Marine Species (www.marinespecies.org), 29/04/2023 08:40:26 (CC-BY)
                                                     chunk 1/1 
Westwodilla caecula                                  no match                                 
Chaetozone cf. setosa                                no match                                 
Algae                                                no match                                 
by names ........................................... DONE
REQUESTING 3 ITEMS USING FUZZY from World Register of Marine Species  (www.marinespecies.org), 29/04/2023 08:40:26 (CC-BY)
                                                     chunk 1/1 
Westwodilla caecula                               -> Westwoodilla caecula                     phonetic 
Chaetozone cf. setosa                             -> Chaetozone setosa                          exact 
Error in r_parsed[[i]][[1]] : subscript out of bounds
Calls: wormsbynames -> wormsbymatchnames
Execution halted
* checking PDF version of manual ... OK
* checking for non-standard things in the check directory ... NOTE
Found the following files/directories:
  ‘aphiainfo.csv’ ‘tax.csv’
* checking for detritus in the temp directory ... OK
* checking for new files in some other directories ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/worms.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 0:31.78, 16.30 + 4.48