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### Running command:
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###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:animalcules.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings animalcules_1.23.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/animalcules.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘animalcules/DESCRIPTION’ ... OK
* this is package ‘animalcules’ version ‘1.23.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Imports includes 31 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘animalcules’ 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 ... 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 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 files in ‘vignettes’ ... OK
* checking examples ... ERROR
Running examples in ‘animalcules-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: find_taxon_mat
> ### Title: Find the Taxonomy Information Matrix
> ### Aliases: find_taxon_mat
> 
> ### ** Examples
> 
> ids <- c("ti|54005", "ti|73001", "ti|573", "ti|228277", "ti|53458")
> tids <- c("54005", "73001", "573", "228277", "53458")
> taxonLevels <- find_taxonomy(tids)
Premature end of data in tag TaxaSet line 3
Error: 1: Premature end of data in tag TaxaSet line 3
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
dimred_tsne 6.656  0.144     6.8
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  	<ERROR> Error: CEFetchPApplication::proxy_stream(): 7 7 8 B 5 0 0 0 0 6 3 F 4 2 5 F 7 B 0 3 7 . 1 . 1 . 1 &lt;/div&gt;&#xa;&#xa;&lt;div class=&quot;diags&quot;&gt;Client: 130.14.18.15&lt;/div&gt;&#xa;&#xa;&lt;div class=&quot;diags&quot;&gt;Server: portal102&lt;/div&gt;&#xa;&#xa;&lt;div class=&quot;diags&quot;&gt;Time: Wed Feb  5 20:04:02 EST 2025&lt;/div&gt;&#xa;&#xa; &#xa;&lt;p&gt;&#xa;NOTE: The above is an internal URL which may differ from the one you used to address the page.&lt;/p&gt;&#xa;&lt;hr/&gt;&#xa;&lt;p&gt;Rev. 01/04/08&lt;/p&gt;&#xa;&#xa;&lt;/body&gt;&#xa;&lt;/html&gt;</ERROR>
  </eFetchResult>
  
  Backtrace:
      ▆
   1. └─animalcules::find_taxonomy(1200) at test-examples.R:286:3
   2.   └─animalcules::find_taxonomy_300(tids)
   3.     └─rentrez::entrez_fetch(db = "taxonomy", id = tids, rettype = "xml")
   4.       ├─base::do.call(make_entrez_query, args)
   5.       └─rentrez (local) `<fn>`(...)
   6.         └─rentrez:::entrez_check(response)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 37 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 ERRORs
See
  ‘/home/biocbuild/bbs-3.21-bioc/meat/animalcules.Rcheck/00check.log’
for details.