Back to Build/check report for BioC 3.19 experimental data
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-10-17 14:51 -0400 (Thu, 17 Oct 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4763
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 59/430HostnameOS / ArchINSTALLBUILDCHECK
CLL 1.44.0  (landing page)
Robert Gentleman
Snapshot Date: 2024-10-17 07:30 -0400 (Thu, 17 Oct 2024)
git_url: https://git.bioconductor.org/packages/CLL
git_branch: RELEASE_3_19
git_last_commit: 6a06c08
git_last_commit_date: 2024-04-30 10:26:31 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for CLL on nebbiolo1

To the developers/maintainers of the CLL package:
- 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.

raw results


Summary

Package: CLL
Version: 1.44.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:CLL.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings CLL_1.44.0.tar.gz
StartedAt: 2024-10-17 11:08:47 -0400 (Thu, 17 Oct 2024)
EndedAt: 2024-10-17 11:09:15 -0400 (Thu, 17 Oct 2024)
EllapsedTime: 28.0 seconds
RetCode: 0
Status:   OK  
CheckDir: CLL.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:CLL.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings CLL_1.44.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.19-data-experiment/meat/CLL.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.5 LTS
* using session charset: UTF-8
* checking for file ‘CLL/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CLL’ version ‘1.44.0’
* 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 ‘CLL’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 16.1Mb
  sub-directories of 1Mb or more:
    data  15.9Mb
* checking package 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
Packages in Depends field not imported from:
  ‘Biobase’ ‘affy’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 ... NOTE
checkRd: (-1) CLLbatch.Rd:16: 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 data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-data-experiment/meat/CLL.Rcheck/00check.log’
for details.


Installation output

CLL.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL CLL
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘CLL’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (CLL)

Tests output


Example timings

CLL.Rcheck/CLL-Ex.timings

nameusersystemelapsed
CLL-package0.0370.0040.041
CLLbatch1.4240.1201.544
disease0.0010.0000.001
nsFilter0.0650.0000.064
sCLLex0.0210.0080.029
sFiltert0.0430.0000.043
sFiltertBH0.0250.0160.041