Multiple platform build/check report for BioC 3.22 - CHECK results for EWCE on taishan

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4810
palomino8	Windows Server 2022 Datacenter	x64	4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six"	4548
kjohnson3	macOS 13.7.1 Ventura	arm64	4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six"	4528
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4493
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for EWCE on taishan

To the developers/maintainers of the EWCE package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/EWCE.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: EWCE

Version: 1.17.0

Command: /home/biocbuild/R/R/bin/R CMD check --install=check:EWCE.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings EWCE_1.17.0.tar.gz

StartedAt: 2025-06-17 07:17:22 -0000 (Tue, 17 Jun 2025)

EndedAt: 2025-06-17 07:57:23 -0000 (Tue, 17 Jun 2025)

EllapsedTime: 2400.6 seconds

RetCode: None

Status: TIMEOUT

CheckDir: EWCE.Rcheck

Warnings: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:EWCE.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings EWCE_1.17.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/EWCE.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 ‘EWCE/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘EWCE’ 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 ‘EWCE’ 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 ... NOTE
checkRd: (-1) compute_gene_scores.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) compute_gene_scores.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:186-187: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:188-189: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:190-192: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:52-55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:56-58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:59-61: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:62-64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:65-68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:69-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:108: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:109-110: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:111: Lost braces
   111 | \item{code{list} : \cr}{A \code{list} or character \code{vector}.}
       |           ^
checkRd: (-1) drop_uninformative_genes.Rd:111: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:124: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:125: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:126-127: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:132: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:133: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:134-136: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:137-138: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:139-140: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:159-162: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:163-166: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drop_uninformative_genes.Rd:167-170: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:46-49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:50-52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:53-55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:56-58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:59-62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:63-68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:110: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:111-112: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:113: Lost braces
   113 | \item{code{list} : \cr}{A \code{list} or character \code{vector}.}
       |           ^
checkRd: (-1) extract_matrix.Rd:113: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:126: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:127: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:128-129: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:134: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:135: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:136-138: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:139-140: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:141-142: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:161-164: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:165-168: Lost braces in \itemize; meant \describe ?
checkRd: (-1) extract_matrix.Rd:169-172: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:44-47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:48-50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:51-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:54-56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:57-60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:61-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:79: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:80-81: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:82: Lost braces
    82 | \item{code{list} : \cr}{A \code{list} or character \code{vector}.}
       |           ^
checkRd: (-1) filter_nonorthologs.Rd:82: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:95: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:96: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:97-98: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:104: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:105-107: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:108-109: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:110-111: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:147-150: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:151-154: Lost braces in \itemize; meant \describe ?
checkRd: (-1) filter_nonorthologs.Rd:155-158: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:74-77: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:78-80: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:81-83: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:84-86: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:87-90: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:91-96: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:131: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:132-133: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:134: Lost braces
   134 | \item{code{list} : \cr}{A \code{list} or character \code{vector}.}
       |           ^
checkRd: (-1) generate_celltype_data.Rd:134: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:147: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:148: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:149-150: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:155: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:156: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:157-159: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:160-161: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:162-163: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:182-185: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:186-189: Lost braces in \itemize; meant \describe ?
checkRd: (-1) generate_celltype_data.Rd:190-193: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:49-52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:53-55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:56-58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:59-61: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:62-65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:66-71: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:120: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:121-122: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:123: Lost braces
   123 | \item{code{list} : \cr}{A \code{list} or character \code{vector}.}
       |           ^
checkRd: (-1) standardise_ctd.Rd:123: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:136: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:137: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:138-139: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:144: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:145: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:146-148: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:149-150: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:151-152: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:171-174: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:175-178: Lost braces in \itemize; meant \describe ?
checkRd: (-1) standardise_ctd.Rd:179-182: Lost braces in \itemize; meant \describe ?
* 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 ... NOTE
Documented arguments not in \usage in Rd file 'get_exp_data_for_bootstrapped_genes.Rd':
  ‘full_results’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ...

Installation output

EWCE.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL EWCE
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’
* installing *source* package ‘EWCE’ ...
** this is package ‘EWCE’ version ‘1.17.0’
** using staged installation
** R
** inst
** 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 (EWCE)

Tests output

Example timings

EWCE.Rcheck/EWCE-Ex.timings

name

user

system

elapsed