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CHECK report for SCLCBam on riesling1

This page was generated on 2021-01-18 15:58:51 -0500 (Mon, 18 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE SCLCBam PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 322/385HostnameOS / ArchINSTALLBUILDCHECK
SCLCBam 1.23.0
Oscar Krijgsman
Snapshot Date: 2021-01-18 09:00:15 -0500 (Mon, 18 Jan 2021)
URL: https://git.bioconductor.org/packages/SCLCBam
Branch: master
Last Commit: e3082d6
Last Changed Date: 2020-10-27 10:12:47 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK [ OK ]

Summary

Package: SCLCBam
Version: 1.23.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SCLCBam.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings SCLCBam_1.23.0.tar.gz
StartedAt: 2021-01-18 11:44:21 -0500 (Mon, 18 Jan 2021)
EndedAt: 2021-01-18 11:44:40 -0500 (Mon, 18 Jan 2021)
EllapsedTime: 18.3 seconds
RetCode: 0
Status:  OK  
CheckDir: SCLCBam.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SCLCBam.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings SCLCBam_1.23.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/SCLCBam.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SCLCBam/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SCLCBam' version '1.23.0'
* 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 'SCLCBam' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 58.0Mb
  sub-directories of 1Mb or more:
    extdata  57.9Mb
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... 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 ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: 1 NOTE
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/SCLCBam.Rcheck/00check.log'
for details.



Installation output

SCLCBam.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/SCLCBam_1.23.0.tar.gz && rm -rf SCLCBam.buildbin-libdir && mkdir SCLCBam.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SCLCBam.buildbin-libdir SCLCBam_1.23.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL SCLCBam_1.23.0.zip && rm SCLCBam_1.23.0.tar.gz SCLCBam_1.23.0.zip
###
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##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  0 57.7M    0  478k    0     0   542k      0  0:01:49 --:--:--  0:01:49  541k
  2 57.7M    2 1695k    0     0   867k      0  0:01:08  0:00:01  0:01:07  867k
  5 57.7M    5 3075k    0     0  1068k      0  0:00:55  0:00:02  0:00:53 1068k
  8 57.7M    8 4867k    0     0  1259k      0  0:00:46  0:00:03  0:00:43 1259k
 12 57.7M   12 7158k    0     0  1480k      0  0:00:39  0:00:04  0:00:35 1480k
 17 57.7M   17 10.0M    0     0  1750k      0  0:00:33  0:00:05  0:00:28 1964k
 22 57.7M   22 12.9M    0     0  1897k      0  0:00:31  0:00:06  0:00:25 2298k
 23 57.7M   23 13.6M    0     0  1759k      0  0:00:33  0:00:07  0:00:26 2152k
 28 57.7M   28 16.3M    0     0  1884k      0  0:00:31  0:00:08  0:00:23 2363k
 45 57.7M   45 26.0M    0     0  2709k      0  0:00:21  0:00:09  0:00:12 3896k
 93 57.7M   93 53.7M    0     0  4917k      0  0:00:12  0:00:11  0:00:01 8409k
100 57.7M  100 57.7M    0     0  5021k      0  0:00:11  0:00:11 --:--:-- 9578k

install for i386

* installing *source* package 'SCLCBam' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SCLCBam'
    finding HTML links ... done
    getPathBamFolder                        html  
REDIRECT:topic	 getPathBamFolder -> getPathBamFolder.html [ SUCCESS ]
REDIRECT:topic	 SCLCBam -> getPathBamFolder.html [ SUCCESS ]
** 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

install for x64

* installing *source* package 'SCLCBam' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SCLCBam' as SCLCBam_1.23.0.zip
* DONE (SCLCBam)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'SCLCBam' successfully unpacked and MD5 sums checked

Tests output


Example timings

SCLCBam.Rcheck/examples_i386/SCLCBam-Ex.timings

nameusersystemelapsed
getPathBamFolder000

SCLCBam.Rcheck/examples_x64/SCLCBam-Ex.timings

nameusersystemelapsed
getPathBamFolder000