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CHECK report for fastLiquidAssociation on tokay1

This page was generated on 2021-05-06 12:31:05 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the fastLiquidAssociation package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 590/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
fastLiquidAssociation 1.26.0  (landing page)
Tina Gunderson
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/fastLiquidAssociation
Branch: RELEASE_3_12
Last Commit: b96ec34
Last Changed Date: 2020-10-27 10:56:41 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository

Summary

Package: fastLiquidAssociation
Version: 1.26.0
Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fastLiquidAssociation.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings fastLiquidAssociation_1.26.0.tar.gz
StartedAt: 2021-05-06 02:44:22 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 02:49:54 -0400 (Thu, 06 May 2021)
EllapsedTime: 332.5 seconds
RetCode: 0
Status:   WARNINGS   
CheckDir: fastLiquidAssociation.Rcheck
Warnings: 2

Command output

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fastLiquidAssociation.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings fastLiquidAssociation_1.26.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/fastLiquidAssociation.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'fastLiquidAssociation/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'fastLiquidAssociation' version '1.26.0'
* 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 'fastLiquidAssociation' can be installed ... WARNING
Found the following significant warnings:
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpEbCBQb/R.INSTALL23342e2d7315/fastLiquidAssociation/man/fastMLA-methods.Rd:59: missing link 'WGCNA'
See 'C:/Users/biocbuild/bbs-3.12-bioc/meat/fastLiquidAssociation.Rcheck/00install.out' for details.
* 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 ... NOTE
Namespaces in Imports field not imported from:
  'impute' 'preprocessCore'
  All declared Imports should be used.
* 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 ... WARNING
Missing link or links in documentation object 'fastMLA-methods.Rd':
  'WGCNA'

See section 'Cross-references' in the 'Writing R Extensions' manual.

* 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                              user system elapsed
fastLiquidAssociation-package 1.92   0.22   33.50
fastboots.GLA-methods         1.25   0.17   32.44
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                              user system elapsed
fastLiquidAssociation-package 1.36   0.14   32.81
fastboots.GLA-methods         0.89   0.08   33.53
* 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 WARNINGs, 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.12-bioc/meat/fastLiquidAssociation.Rcheck/00check.log'
for details.



Installation output

fastLiquidAssociation.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/fastLiquidAssociation_1.26.0.tar.gz && rm -rf fastLiquidAssociation.buildbin-libdir && mkdir fastLiquidAssociation.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fastLiquidAssociation.buildbin-libdir fastLiquidAssociation_1.26.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL fastLiquidAssociation_1.26.0.zip && rm fastLiquidAssociation_1.26.0.tar.gz fastLiquidAssociation_1.26.0.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
100  151k  100  151k    0     0  10.9M      0 --:--:-- --:--:-- --:--:-- 12.3M

install for i386

* installing *source* package 'fastLiquidAssociation' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'fastLiquidAssociation'
    finding HTML links ... done
    fastLiquidAssociation-package           html  
    fastMLA-methods                         html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpEbCBQb/R.INSTALL23342e2d7315/fastLiquidAssociation/man/fastMLA-methods.Rd:59: missing link 'WGCNA'
    fastboots.GLA-methods                   html  
    mass.CNM-methods                        html  
    testmat                                 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 'fastLiquidAssociation' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'fastLiquidAssociation' as fastLiquidAssociation_1.26.0.zip
* DONE (fastLiquidAssociation)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'fastLiquidAssociation' successfully unpacked and MD5 sums checked

Tests output


Example timings

fastLiquidAssociation.Rcheck/examples_i386/fastLiquidAssociation-Ex.timings

nameusersystemelapsed
fastLiquidAssociation-package 1.92 0.2233.50
fastMLA-methods0.640.091.58
fastboots.GLA-methods 1.25 0.1732.44
mass.CNM-methods0.890.061.57

fastLiquidAssociation.Rcheck/examples_x64/fastLiquidAssociation-Ex.timings

nameusersystemelapsed
fastLiquidAssociation-package 1.36 0.1432.81
fastMLA-methods0.680.141.32
fastboots.GLA-methods 0.89 0.0833.53
mass.CNM-methods0.830.081.77