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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD check --install=check:DiscoRhythm.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings DiscoRhythm_1.24.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/DiscoRhythm.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* 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-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DiscoRhythm/DESCRIPTION’ ... OK
* this is package ‘DiscoRhythm’ version ‘1.24.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Imports includes 30 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
* 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 ‘DiscoRhythm’ 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 ... NOTE
Namespace in Imports field not imported from: ‘data.table’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
discoApp: no visible binding for global variable ‘.discorhythm_ncores’
discoApp: no visible binding for global variable ‘.discorhythm_local’
discoBatch: no visible binding for global variable ‘discoODAres’
Undefined global functions or variables:
  .discorhythm_local .discorhythm_ncores discoODAres
* checking Rd files ... NOTE
checkRd: (-1) discoParseMeta.Rd:28: Escaped LaTeX specials: \_
checkRd: (-1) discoParseMeta.Rd:29: Escaped LaTeX specials: \_
* 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 ... ERROR
Running examples in ‘DiscoRhythm-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: discoBatch
> ### Title: Core DiscoRhythm Workflow
> ### Aliases: discoBatch
> 
> ### ** Examples
> 
> indata <- discoGetSimu()
> 
> # Batch execute (on demo data) to generate a DiscoRhythm_report.html report.
> # Returns the results of discoODAs
> discoODAres <- discoBatch(indata,
+ report="DiscoRhythm_report.html",
+ osc_method="CS")


processing file: DiscoRhythm_report.Rmd
Error in pm[[2]] : subscript out of bounds
Calls: discoBatch ... eval -> eval -> <Anonymous> -> ggplotly.ggplot -> gg2list

Quitting from DiscoRhythm_report.Rmd:115-118 [unnamed-chunk-8]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `pm[[2]]`:
! subscript out of bounds
---
Backtrace:
    ▆
 1. ├─plotly::ggplotly(...)
 2. └─plotly:::ggplotly.ggplot(...)
 3.   └─plotly::gg2list(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* 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, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.21-bioc/meat/DiscoRhythm.Rcheck/00check.log’
for details.