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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ngsReports.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ngsReports_2.11.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/ngsReports.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ngsReports/DESCRIPTION’ ... OK
* this is package ‘ngsReports’ version ‘2.11.0’
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘ngsReports’ 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 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* 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:
  p$labels not equal to list(x = "Insert Size", y = "Frequency", colour = "Filename").
  names for current but not for target
  Attributes: < names for target but not for current >
  Attributes: < Length mismatch: comparison on first 0 components >
  Length mismatch: comparison on first 0 components
  ── Failure ('test-plotInsertSize.R:35:3'): Basic FastpDataList Plots work ──────
  p$labels not equal to list(x = "Insert Size", y = "Cumulative Frequency", colour = "Filename").
  names for current but not for target
  Attributes: < names for target but not for current >
  Attributes: < Length mismatch: comparison on first 0 components >
  Length mismatch: comparison on first 0 components
  
  [ FAIL 8 | WARN 1 | SKIP 0 | PASS 379 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/biocbuild/bbs-3.22-bioc/meat/ngsReports.Rcheck/00check.log’
for details.

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ngsReports
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘ngsReports’ ...
** this is package ‘ngsReports’ version ‘2.11.0’
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (ngsReports)

R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(ngsReports)
Loading required package: BiocGenerics
Loading required package: generics

Attaching package: 'generics'

The following objects are masked from 'package:base':

    as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
    setequal, union


Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
    mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
    rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
    unsplit, which.max, which.min

Loading required package: ggplot2
Loading required package: patchwork
Loading required package: tibble
> 
> test_check("ngsReports")
2025-09-12 20:43:48.515 R[85522:230043940] XType: Using static font registry.
[ FAIL 8 | WARN 1 | SKIP 0 | PASS 379 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-allPlots.R:104:3'): .updateThemeFromDots works ───────────────
p$theme not equal to list().
Attributes: < Modes: list, NULL >
Attributes: < Lengths: 5, 0 >
Attributes: < names for target but not for current >
Attributes: < current is not list-like >
── Failure ('test-allPlots.R:105:3'): .updateThemeFromDots works ───────────────
.updateThemeFromDots(p)$theme not equal to list().
Attributes: < Modes: list, NULL >
Attributes: < Lengths: 5, 0 >
Attributes: < names for target but not for current >
Attributes: < current is not list-like >
── Failure ('test-allPlots.R:107:3'): .updateThemeFromDots works ───────────────
.updateThemeFromDots(p)$theme not equal to list().
Attributes: < Modes: list, NULL >
Attributes: < Lengths: 5, 0 >
Attributes: < names for target but not for current >
Attributes: < current is not list-like >
── Failure ('test-emptyPlot.R:21:5'): correct aesthetics ───────────────────────
p$labels not equal to `l`.
names for current but not for target
Attributes: < names for target but not for current >
Attributes: < Length mismatch: comparison on first 0 components >
Length mismatch: comparison on first 0 components
── Failure ('test-makeSidebar.R:39:9'): Plot is as expected ────────────────────
...[] not equal to c(...).
1/14 mismatches
x[3]: "0.755905511811024"
y[3]: "0.377952755905512"
── Failure ('test-plotInsertSize.R:17:3'): Basic FastpDataList Plots work ──────
p$labels not equal to list(...).
Attributes: < names for target but not for current >
Attributes: < Length mismatch: comparison on first 0 components >
Length mismatch: comparison on first 1 components
── Failure ('test-plotInsertSize.R:27:3'): Basic FastpDataList Plots work ──────
p$labels not equal to list(x = "Insert Size", y = "Frequency", colour = "Filename").
names for current but not for target
Attributes: < names for target but not for current >
Attributes: < Length mismatch: comparison on first 0 components >
Length mismatch: comparison on first 0 components
── Failure ('test-plotInsertSize.R:35:3'): Basic FastpDataList Plots work ──────
p$labels not equal to list(x = "Insert Size", y = "Cumulative Frequency", colour = "Filename").
names for current but not for target
Attributes: < names for target but not for current >
Attributes: < Length mismatch: comparison on first 0 components >
Length mismatch: comparison on first 0 components

[ FAIL 8 | WARN 1 | SKIP 0 | PASS 379 ]
Error: Test failures
Execution halted