| Back to Multiple platform build/check report for BioC 3.17: simplified long | 
  | 
This page was generated on 2023-10-16 11:36:00 -0400 (Mon, 16 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs | 
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 | 
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 | 
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 | 
| 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 | ||||
| Package 333/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ChIPsim 1.54.0  (landing page) Peter Humburg 
  | nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | see weekly results here | ||||||||||||
| 
To the developers/maintainers of the ChIPsim package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ChIPsim.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.  | 
| Package: ChIPsim | 
| Version: 1.54.0 | 
| Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:ChIPsim.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings ChIPsim_1.54.0.tar.gz | 
| StartedAt: 2023-10-16 00:32:25 -0400 (Mon, 16 Oct 2023) | 
| EndedAt: 2023-10-16 00:35:18 -0400 (Mon, 16 Oct 2023) | 
| EllapsedTime: 172.8 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: ChIPsim.Rcheck | 
| Warnings: 0 | 
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###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:ChIPsim.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings ChIPsim_1.54.0.tar.gz
###
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* using log directory 'F:/biocbuild/bbs-3.17-bioc/meat/ChIPsim.Rcheck'
* using R version 4.3.1 (2023-06-16 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 12.2.0
    GNU Fortran (GCC) 12.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'ChIPsim/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ChIPsim' version '1.54.0'
* 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 whether package 'ChIPsim' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'Biostrings'
A package should be listed in only one of these fields.
* 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 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 ... NOTE
print.SimulatedFeature: no visible global function definition for 'str'
Undefined global functions or variables:
  str
Consider adding
  importFrom("utils", "str")
to your NAMESPACE file.
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* 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: 2 NOTEs
See
  'F:/biocbuild/bbs-3.17-bioc/meat/ChIPsim.Rcheck/00check.log'
for details.
ChIPsim.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL ChIPsim ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library' * installing *source* package 'ChIPsim' ... ** using staged installation ** R ** 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 (ChIPsim)
ChIPsim.Rcheck/ChIPsim-Ex.timings
| name | user | system | elapsed | |
| ChIPsim-package | 0 | 0 | 0 | |
| bindDens2readDens | 1.89 | 0.03 | 1.92 | |
| decodeQuality | 0 | 0 | 0 | |
| defaultControl | 0 | 0 | 0 | |
| defaultErrorProb | 0 | 0 | 0 | |
| defaultFunctions | 0 | 0 | 0 | |
| defaultGenerator | 0.03 | 0.00 | 0.03 | |
| extractQuality | 0 | 0 | 0 | |
| feat2dens | 0.77 | 0.16 | 0.92 | |
| featureDensity | 0 | 0 | 0 | |
| makeFeatures | 0.04 | 0.00 | 0.05 | |
| placeFeatures | 0.07 | 0.00 | 0.06 | |
| pos2fastq | 0.04 | 0.00 | 0.05 | |
| readError | 0 | 0 | 0 | |
| reconcileFeatures | 0.06 | 0.00 | 0.06 | |
| sampleReads | 0.71 | 0.17 | 0.88 | |
| simChIP | 0 | 0 | 0 | |
| simpleNames | 0 | 0 | 0 | |
| stableFeature | 0 | 0 | 0 | |
| writeFASTQ | 0 | 0 | 0 | |