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### Running command:
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###   /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings iNETgrate_1.0.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/iNETgrate.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 ‘iNETgrate/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iNETgrate’ version ‘1.0.0’
* 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 ‘iNETgrate’ 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 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 ... ERROR
Running examples in ‘iNETgrate-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: analyzeSurvival
> ### Title: Survival analysis
> ### Aliases: analyzeSurvival
> ### Keywords: survival
> 
> ### ** Examples
> 
> 
> ## Preparing data:
> data(toyCleanedAml)
> data(toyComputEloci)
> eigenloci <- toyComputEloci$eigenloci
> 
> patientLabel <- as.matrix(toyCleanedAml$survival)[,"Risk1"]
> dimnames1 <- list(c("High", "Low"), c("Risk1", "Risk2"))
> netPath <- file.path(tempdir(), "net")
> dir.create(netPath, showWarnings=FALSE)
> print(paste("Results will be saved in:", netPath))
[1] "Results will be saved in: /home/biocbuild/tmp/Rtmp0OewOd/net"
> print(Sys.time())
[1] "2023-11-02 11:39:29 UTC"
> 
> ## Make the network:
> madeNetwork <- makeNetwork(genExpr=toyCleanedAml$genExpr, eigenloci=eigenloci,
+                             geNames=colnames(eigenloci), mus=c(0.6), 
+                             outPath=netPath, verbose=1)
Warning: executing %dopar% sequentially: no parallel backend registered
> 
> ## Compute eigengenes:
> ## More samples maybe included if eigenloci=NULL below. See the note in ?computEigengenes.
> eigengenes <- computEigengenes(genExpr=toyCleanedAml$genExpr, 
+                                   eigenloci=eigenloci, netPath=netPath, 
+                                   geNames=colnames(eigenloci), Labels=patientLabel, 
+                                   Label1="Low", Label2="High", 
+                                   mus=c(0.6), survival=toyCleanedAml$survival,
+                                   mu2modules=madeNetwork$mu2modules)
mu value: 0.6  lCombine: 1
Using expr
Add dnam
Projecting...
mu value: 0.6  lCombine: 0
Using expr
Add dnam
Projecting...
* 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/iNETgrate.Rcheck/00check.log’
for details.