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### Running command:
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###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:ChIPseeker.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings ChIPseeker_1.43.0.tar.gz
###
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* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/ChIPseeker.Rcheck'
* using R Under development (unstable) (2025-01-21 r87610 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'ChIPseeker/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ChIPseeker' version '1.43.0'
* 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 whether package 'ChIPseeker' can be installed ... OK
* checking installed package size ... INFO
  installed size is  6.1Mb
  sub-directories of 1Mb or more:
    data   4.5Mb
* 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 whether startup messages can be suppressed ... 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 ... OK
* 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: OK

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###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL ChIPseeker
###
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'ChIPseeker' ...
** this is package 'ChIPseeker' version '1.43.0'
** using staged installation
** R
** data
** 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 (ChIPseeker)

R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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)
> library(ChIPseeker)

ChIPseeker v1.43.0 Learn more at https://yulab-smu.top/contribution-knowledge-mining/

Please cite:

Guangchuang Yu, Li-Gen Wang, and Qing-Yu He. ChIPseeker: an
R/Bioconductor package for ChIP peak annotation, comparison and
visualization. Bioinformatics. 2015, 31(14):2382-2383
> 
> test_check("ChIPseeker")
>> preparing start_site regions by gene... 2025-01-23 11:49:09 PM
>> preparing tag matrix...  2025-01-23 11:49:09 PM 
>> binning method is used...2025-01-23 11:49:24 PM
>> preparing body regions by enhancer... 2025-01-23 11:49:24 PM
>> preparing tag matrix by binning...  2025-01-23 11:49:24 PM 
>> preparing matrix for body region with no flank extension... 2025-01-23 11:49:24 PM
>> 0 peaks(0%), having lengths smaller than 800bp, are filtered... 2025-01-23 11:49:24 PM
>> binning method is used...2025-01-23 11:49:29 PM
>> preparing body regions by enhancer... 2025-01-23 11:49:29 PM
>> preparing tag matrix by binning...  2025-01-23 11:49:29 PM 
>> preparing matrix with extension from (enhancer_SS-20%)~(enhancer_TS+20%)... 2025-01-23 11:49:29 PM
>> 0 peaks(0%), having lengths smaller than 800bp, are filtered... 2025-01-23 11:49:30 PM
>> binning method is used...2025-01-23 11:49:37 PM
>> preparing body regions by enhancer... 2025-01-23 11:49:37 PM
>> preparing tag matrix by binning...  2025-01-23 11:49:37 PM 
>> preparing matrix with flank extension from (enhancer_SS-1000bp)~(enhancer_TS+1000bp)... 2025-01-23 11:49:37 PM
>> 0 peaks(0%), having lengths smaller than 800bp, are filtered... 2025-01-23 11:49:37 PM
>> preparing start_site regions by gene... 2025-01-23 11:49:41 PM
>> preparing tag matrix...  2025-01-23 11:49:41 PM 
>> preparing start_site regions by gene... 2025-01-23 11:50:02 PM
>> preparing tag matrix...  2025-01-23 11:50:02 PM 
>> binning method is used...2025-01-23 11:50:03 PM
>> preparing body regions by gene... 2025-01-23 11:50:03 PM
>> preparing tag matrix by binning...  2025-01-23 11:50:03 PM 
>> preparing matrix for body region with no flank extension... 2025-01-23 11:50:03 PM
>> 9 peaks(1.2%), having lengths smaller than 800bp, are filtered... 2025-01-23 11:50:06 PM
>> binning method is used...2025-01-23 11:50:47 PM
>> preparing body regions by enhancer... 2025-01-23 11:50:47 PM
>> preparing tag matrix by binning...  2025-01-23 11:50:47 PM 
>> preparing matrix with extension from (enhancer_SS-20%)~(enhancer_TS+20%)... 2025-01-23 11:50:47 PM
>> 0 peaks(0%), having lengths smaller than 800bp, are filtered... 2025-01-23 11:50:47 PM
>> binning method is used...2025-01-23 11:50:55 PM
>> preparing body regions by gene... 2025-01-23 11:50:55 PM
>> preparing tag matrix by binning...  2025-01-23 11:50:55 PM 
>> preparing matrix with flank extension from (TSS-1000bp)~(TTS+1000bp)... 2025-01-23 11:50:55 PM
>> 15 peaks(1.80072%), having lengths smaller than 800bp, are filtered... 2025-01-23 11:50:58 PM
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 28 ]
> 
> proc.time()
   user  system elapsed 
 165.32    7.95  173.28