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### Running command:
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###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:BindingSiteFinder.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings BindingSiteFinder_2.4.0.tar.gz
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* using log directory ‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/meat/BindingSiteFinder.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘BindingSiteFinder/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BindingSiteFinder’ version ‘2.4.0’
* 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 ‘BindingSiteFinder’ 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 files in ‘vignettes’ ... OK
* checking examples ... ERROR
Running examples in ‘BindingSiteFinder-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: BSFind
> ### Title: RBP binding site definition for iCLIP data
> ### Aliases: BSFind
> 
> ### ** Examples
> 
> # load clip data
> files <- system.file("extdata", package="BindingSiteFinder")
> load(list.files(files, pattern = ".rda$", full.names = TRUE))
> # Load genes
> load(list.files(files, pattern = ".rds$", full.names = TRUE)[1])
> # load transcript regions
> load(list.files(files, pattern = ".rds$", full.names = TRUE)[2])
> BSFind(object = bds, bsSize = 9, anno.genes = gns,
+  anno.transcriptRegionList = regions, est.subsetChromosome = "chr22")
pureClipGlobalFilter...
estimateBsWidth...
Estimation at: 0%
8.7% (1701/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 10%
7.64% (1494/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 20%
6.79% (1327/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 30%
5.9% (1153/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 40%
5.02% (982/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 50%
4.18% (817/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 60%
3.31% (647/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Estimation at: 70%
2.4% (469/19551) peaks overlap with multiple anno.genes in the given gene annotation. 
A single instance of each peak is kept. This is recommended. 
 
Killed
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR
See
  ‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/meat/BindingSiteFinder.Rcheck/00check.log’
for details.