• using R version 4.6.0 (2026-04-24)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-16 (Debian 16.1.0-1) 16.1.0     GNU Fortran (Debian 16.1.0-1) 16.1.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-06-06 20:42:07 UTC
• checking for file ‘tepr/DESCRIPTION’ ... OK
• this is package ‘tepr’ version ‘1.1.15’
• 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 ‘tepr’ can be installed ... OK See the install log for details.
• 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 ... [14s/18s] OK
• checking whether the package can be loaded with stated dependencies ... [15s/18s] OK
• checking whether the package can be unloaded cleanly ... [15s/18s] OK
• checking whether the namespace can be loaded with stated dependencies ... [14s/18s] OK
• checking whether the namespace can be unloaded cleanly ... [15s/19s] OK
• checking loading without being on the library search path ... [16s/21s] 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 ... [68s/89s] OK
• checking Rd files ... [0s/1s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [27s/38s] ERROR Running examples in ‘tepr-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: retrievechrom > ### Title: Retrieve chromosome lengths and information for a specified > ### genome. > ### Aliases: retrievechrom > > ### ** Examples > > # This example requires an internet connection to the UCSC database > hg19_chroms <- retrievechrom(genomename = "hg19", verbose = TRUE) Retrieving chromosome lengths Error in retrievechrom(genomename = "hg19", verbose = TRUE) : [tepr] Error: Genome not found.   'hg19' not found via SeqinfoForUCSCGenome.   Check spelling or UCSC availability.   Alternatively, provide 'chromtab' directly. Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [23s/30s] ERROR   Running ‘testthat.R’ [23s/29s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(tepr)   >   > test_check("tepr")   Saving _problems/test-preprocessing-blacklisthighmap-10.R   Saving _problems/test-preprocessing-createtablescores-11.R   Saving _problems/test-preprocessing-24.R   [ FAIL 3 | WARN 0 | SKIP 0 | PASS 28 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-preprocessing-blacklisthighmap.R:10:1'): (code run outside of `test_that()`) ──   Error in `retrievechrom(genomename, verbose = FALSE, filterchrom = FALSE)`:   [tepr] Error: Genome not found.     'hg38' not found via SeqinfoForUCSCGenome.     Check spelling or UCSC availability.     Alternatively, provide 'chromtab' directly.      Backtrace:       ▆    1. └─tepr::retrievechrom(genomename, verbose = FALSE, filterchrom = FALSE) at test-preprocessing-blacklisthighmap.R:10:1   ── Error ('test-preprocessing-createtablescores.R:11:1'): (code run outside of `test_that()`) ──   Error in `retrievechrom(genomename, verbose = FALSE)`:   [tepr] Error: Genome not found.     'hg38' not found via SeqinfoForUCSCGenome.     Check spelling or UCSC availability.     Alternatively, provide 'chromtab' directly.      Backtrace:       ▆    1. └─tepr::retrievechrom(genomename, verbose = FALSE) at test-preprocessing-createtablescores.R:11:1   ── Error ('test-preprocessing.R:23:1'): (code run outside of `test_that()`) ────   Error in `retrievechrom(genomename, verbose)`:   [tepr] Error: Genome not found.     'hg38' not found via SeqinfoForUCSCGenome.     Check spelling or UCSC availability.     Alternatively, provide 'chromtab' directly.      Backtrace:       ▆    1. └─tepr::preprocessing(...) at test-preprocessing.R:23:1    2. └─tepr:::.createbedgraphlistwmean(...)    3. └─tepr::blacklisthighmap(...)    4. └─tepr::retrievechrom(genomename, verbose)      [ FAIL 3 | WARN 0 | SKIP 0 | PASS 28 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [41s/56s] OK
• checking PDF version of manual ... [5s/7s] OK
• checking HTML version of manual ... [3s/5s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs