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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:granulator.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings granulator_1.17.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/granulator.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘granulator/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘granulator’ version ‘1.17.0’
* 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 ‘granulator’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
deconvolute      76.065  0.052  76.290
plot_regress     46.231  0.044  47.385
plot_deconvolute 45.675  0.068  45.836
plot_benchmark   44.121  0.068  44.284
benchmark        43.356  0.167  43.629
plot_proportions 42.968  0.056  43.118
correlate        42.817  0.076  42.997
plot_correlate   42.831  0.043  42.975
plot_similarity   9.626  0.004   9.909
* 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:
  y[1]: "gg"
  ── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
  class(plot_benchmark(bench))[1] not equal to "gg".
  1/1 mismatches
  x[1]: "ggplot2::ggplot"
  y[1]: "gg"
  ── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
  class(plot_correlate(correl))[1] not equal to "gg".
  1/1 mismatches
  x[1]: "ggplot2::ggplot"
  y[1]: "gg"
  
  [ FAIL 40 | WARN 23 | SKIP 0 | PASS 97 ]
  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
  ‘/home/biocbuild/bbs-3.22-bioc/meat/granulator.Rcheck/00check.log’
for details.

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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL granulator
###
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* installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’
* installing *source* package ‘granulator’ ...
** this is package ‘granulator’ version ‘1.17.0’
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (granulator)

R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu

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("granulator")
> 
> test_check("granulator")
[ FAIL 40 | WARN 23 | SKIP 0 | PASS 97 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-data.R:10:5'): Load data ─────────────────────────────────────
class(plot_similarity(sigMatrix_ABIS_S0))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-data.R:14:5'): Load data ─────────────────────────────────────
class(plot_similarity(sigMatrix_ABIS_S1))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-data.R:18:5'): Load data ─────────────────────────────────────
class(plot_similarity(sigMatrix_ABIS_S2))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-data.R:22:5'): Load data ─────────────────────────────────────
class(plot_similarity(sigMatrix_ABIS_S3))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-data.R:30:5'): Load data ─────────────────────────────────────
class(plot_similarity(sigList))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:21:9'): Deconvolution methods ────────────────
class(plot_proportions(decon, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:22:9'): Deconvolution methods ────────────────
class(plot_deconvolute(decon))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:31:9'): Deconvolution methods ────────────────
class(plot_regress(bench, method = m, signature = "sig1"))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:32:9'): Deconvolution methods ────────────────
class(plot_benchmark(bench))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"
── Failure ('test-deconvolution.R:40:9'): Deconvolution methods ────────────────
class(plot_correlate(correl))[1] not equal to "gg".
1/1 mismatches
x[1]: "ggplot2::ggplot"
y[1]: "gg"

[ FAIL 40 | WARN 23 | SKIP 0 | PASS 97 ]
Error: Test failures
Execution halted