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### Running command:
###
###   /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:MobilityTransformR.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings MobilityTransformR_1.6.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/MobilityTransformR.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (GCC) 10.3.1
    GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MobilityTransformR/DESCRIPTION’ ... OK
* this is package ‘MobilityTransformR’ version ‘1.6.0’
* 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 ‘MobilityTransformR’ 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 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 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 ... 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:
    2. └─xcms::findChromPeaks(EIE_test, param = xcms::MatchedFilterParam(binSize = 1))
    3.   └─xcms (local) .local(object, param, ...)
    4.     ├─BiocParallel::bplapply(...)
    5.     └─BiocParallel::bplapply(...)
    6.       └─BiocParallel:::.bpinit(...)
    7.         ├─BiocParallel::bploop(...)
    8.         └─BiocParallel:::bploop.lapply(...)
    9.           └─BiocParallel:::.bploop_impl(...)
   10.             └─BiocParallel:::.collect_result(manager, reducer, progress, BPPARAM)
   11.               ├─BiocParallel:::.reducer_add(reducer, njob, value)
   12.               └─BiocParallel:::.reducer_add(reducer, njob, value)
  
  [ FAIL 2 | WARN 2 | SKIP 0 | PASS 60 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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-3.18-bioc/meat/MobilityTransformR.Rcheck/00check.log’
for details.

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###
### Running command:
###
###   /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL MobilityTransformR
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* installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’
* installing *source* package ‘MobilityTransformR’ ...
** using staged installation
** R
** 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 (MobilityTransformR)

R version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

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")
> 
> test_check("MobilityTransformR")
Loading required package: MobilityTransformR
Loading required package: MSnbase
Loading required package: BiocGenerics

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, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: mzR
Loading required package: Rcpp
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following object is masked from 'package:utils':

    findMatches

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

    I, expand.grid, unname

Loading required package: ProtGenerics

Attaching package: 'ProtGenerics'

The following object is masked from 'package:stats':

    smooth


This is MSnbase version 2.28.0 
  Visit https://lgatto.github.io/MSnbase/ to get started.


Attaching package: 'MSnbase'

The following object is masked from 'package:base':

    trimws

[ FAIL 2 | WARN 2 | SKIP 0 | PASS 60 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_transform.R:81:5'): Transformation of Spectra works ────────────
Error in `reducer$value.cache[[as.character(idx)]] <- values`: wrong args for environment subassignment
Backtrace:
     ▆
  1. ├─xcms::findChromPeaks(EIE_test, param = xcms::MatchedFilterParam(binSize = 1)) at test_transform.R:81:4
  2. └─xcms::findChromPeaks(EIE_test, param = xcms::MatchedFilterParam(binSize = 1))
  3.   └─xcms (local) .local(object, param, ...)
  4.     ├─BiocParallel::bplapply(...)
  5.     └─BiocParallel::bplapply(...)
  6.       └─BiocParallel:::.bpinit(...)
  7.         ├─BiocParallel::bploop(...)
  8.         └─BiocParallel:::bploop.lapply(...)
  9.           └─BiocParallel:::.bploop_impl(...)
 10.             └─BiocParallel:::.collect_result(manager, reducer, progress, BPPARAM)
 11.               ├─BiocParallel:::.reducer_add(reducer, njob, value)
 12.               └─BiocParallel:::.reducer_add(reducer, njob, value)
── Error ('test_transform.R:150:5'): Transformation of OnDiskExp works ─────────
Error in `reducer$value.cache[[as.character(idx)]] <- values`: wrong args for environment subassignment
Backtrace:
     ▆
  1. ├─xcms::findChromPeaks(EIE_test, param = xcms::MatchedFilterParam(binSize = 1)) at test_transform.R:150:4
  2. └─xcms::findChromPeaks(EIE_test, param = xcms::MatchedFilterParam(binSize = 1))
  3.   └─xcms (local) .local(object, param, ...)
  4.     ├─BiocParallel::bplapply(...)
  5.     └─BiocParallel::bplapply(...)
  6.       └─BiocParallel:::.bpinit(...)
  7.         ├─BiocParallel::bploop(...)
  8.         └─BiocParallel:::bploop.lapply(...)
  9.           └─BiocParallel:::.bploop_impl(...)
 10.             └─BiocParallel:::.collect_result(manager, reducer, progress, BPPARAM)
 11.               ├─BiocParallel:::.reducer_add(reducer, njob, value)
 12.               └─BiocParallel:::.reducer_add(reducer, njob, value)

[ FAIL 2 | WARN 2 | SKIP 0 | PASS 60 ]
Error: Test failures
Execution halted