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This page was generated on 2021-12-01 17:17:46 -0500 (Wed, 01 Dec 2021).

CHECK results for customCMPdb on tokay2

To the developers/maintainers of the customCMPdb package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/customCMPdb.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 432/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
customCMPdb 1.4.0  (landing page)
Yuzhu Duan
Snapshot Date: 2021-11-30 04:15:05 -0500 (Tue, 30 Nov 2021)
git_url: https://git.bioconductor.org/packages/customCMPdb
git_branch: RELEASE_3_14
git_last_commit: a069660
git_last_commit_date: 2021-10-26 13:03:34 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: customCMPdb
Version: 1.4.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:customCMPdb.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings customCMPdb_1.4.0.tar.gz
StartedAt: 2021-11-30 21:02:57 -0500 (Tue, 30 Nov 2021)
EndedAt: 2021-11-30 21:08:01 -0500 (Tue, 30 Nov 2021)
EllapsedTime: 303.8 seconds
RetCode: 0
Status:   OK  
CheckDir: customCMPdb.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:customCMPdb.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings customCMPdb_1.4.0.tar.gz
###
##############################################################################
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/customCMPdb.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'customCMPdb/DESCRIPTION' ... OK
* this is package 'customCMPdb' version '1.4.0'
* 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 whether package 'customCMPdb' 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 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
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
queryAnnotDB   19.98   1.73   70.72
customAnnot    15.47   1.62   19.25
getSDFwithName  8.15   0.30    9.06
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
queryAnnotDB   18.33   1.54   21.49
customAnnot    15.75   1.31   18.84
getSDFwithName  7.37   0.47    8.44
* 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: OK


Installation output

customCMPdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/customCMPdb_1.4.0.tar.gz && rm -rf customCMPdb.buildbin-libdir && mkdir customCMPdb.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=customCMPdb.buildbin-libdir customCMPdb_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL customCMPdb_1.4.0.zip && rm customCMPdb_1.4.0.tar.gz customCMPdb_1.4.0.zip
###
##############################################################################
##############################################################################


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

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  347k  100  347k    0     0  1317k      0 --:--:-- --:--:-- --:--:-- 1322k

install for i386

* installing *source* package 'customCMPdb' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'customCMPdb'
    finding HTML links ... done
    buildCMAPdb                             html  
    buildDrugAgeDB                          html  
    customAnnot                             html  
    customCMPdb-package                     html  
    dbxml2df                                html  
    df2SQLite                               html  
    getSDFwithName                          html  
    processDrugage                          html  
    queryAnnotDB                            html  
** 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 'customCMPdb' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'customCMPdb' as customCMPdb_1.4.0.zip
* DONE (customCMPdb)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'customCMPdb' successfully unpacked and MD5 sums checked

Tests output


Example timings

customCMPdb.Rcheck/examples_i386/customCMPdb-Ex.timings

nameusersystemelapsed
buildCMAPdb0.010.000.02
buildDrugAgeDB0.240.000.26
customAnnot15.47 1.6219.25
customCMPdb-package0.050.000.05
dbxml2df0.000.020.01
df2SQLite0.020.000.02
getSDFwithName8.150.309.06
processDrugage0.020.000.01
queryAnnotDB19.98 1.7370.72

customCMPdb.Rcheck/examples_x64/customCMPdb-Ex.timings

nameusersystemelapsed
buildCMAPdb0.020.000.02
buildDrugAgeDB0.080.030.11
customAnnot15.75 1.3118.84
customCMPdb-package0.040.020.06
dbxml2df0.020.000.02
df2SQLite000
getSDFwithName7.370.478.44
processDrugage0.020.000.01
queryAnnotDB18.33 1.5421.49