BioC 3.5: CHECK report for GeneGeneInteR on tokay2
This page was generated on 2017-10-18 14:26:17 -0400 (Wed, 18 Oct 2017).
GeneGeneInteR 1.2.0 Mathieu Emily , Magalie Houee-Bigot
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017) | URL: https://git.bioconductor.org/packages/GeneGeneInteR | Branch: RELEASE_3_5 | Last Commit: bee4f0e | Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | |
tokay2 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | [ OK ] | OK | |
veracruz2 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
Summary
Package: GeneGeneInteR
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Version: 1.2.0
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Command: rm -rf GeneGeneInteR.buildbin-libdir GeneGeneInteR.Rcheck && mkdir GeneGeneInteR.buildbin-libdir GeneGeneInteR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GeneGeneInteR.buildbin-libdir GeneGeneInteR_1.2.0.tar.gz >GeneGeneInteR.Rcheck\00install.out 2>&1 && cp GeneGeneInteR.Rcheck\00install.out GeneGeneInteR-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=GeneGeneInteR.buildbin-libdir --install="check:GeneGeneInteR-install.out" --force-multiarch --no-vignettes --timings GeneGeneInteR_1.2.0.tar.gz
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StartedAt: 2017-10-17 23:59:12 -0400 (Tue, 17 Oct 2017)
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EndedAt: 2017-10-18 00:07:39 -0400 (Wed, 18 Oct 2017)
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EllapsedTime: 506.5 seconds
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RetCode: 0
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Status: OK
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CheckDir: GeneGeneInteR.Rcheck
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Warnings: 0
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Command output
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### Running command:
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### rm -rf GeneGeneInteR.buildbin-libdir GeneGeneInteR.Rcheck && mkdir GeneGeneInteR.buildbin-libdir GeneGeneInteR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GeneGeneInteR.buildbin-libdir GeneGeneInteR_1.2.0.tar.gz >GeneGeneInteR.Rcheck\00install.out 2>&1 && cp GeneGeneInteR.Rcheck\00install.out GeneGeneInteR-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=GeneGeneInteR.buildbin-libdir --install="check:GeneGeneInteR-install.out" --force-multiarch --no-vignettes --timings GeneGeneInteR_1.2.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/GeneGeneInteR.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GeneGeneInteR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GeneGeneInteR' version '1.2.0'
* 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 'GeneGeneInteR' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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
CCA.test: no visible global function definition for 'as'
CLD.test: no visible global function definition for 'as'
GBIGM.test: no visible global function definition for 'as'
KCCA.test: no visible global function definition for 'as'
PCA.Std: no visible global function definition for 'as'
PLSPM.test: no visible global function definition for 'as'
imputeSnpMatrix: no visible global function definition for 'as'
snpMatrixScour: no visible global function definition for 'as'
Undefined global functions or variables:
as
Consider adding
importFrom("methods", "as")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... 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
'C:/Users/biocbuild/bbs-3.5-bioc/meat/GeneGeneInteR.Rcheck/00check.log'
for details.
GeneGeneInteR.Rcheck/00install.out:
install for i386
* installing *source* package 'GeneGeneInteR' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'GeneGeneInteR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GeneGeneInteR' as GeneGeneInteR_1.2.0.zip
* DONE (GeneGeneInteR)
GeneGeneInteR.Rcheck/examples_i386/GeneGeneInteR-Ex.timings:
name | user | system | elapsed
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CCA.test | 0.50 | 0.05 | 0.55 |
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CLD.test | 1.80 | 0.00 | 1.84 |
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GBIGM.test | 2.88 | 0.08 | 2.95 |
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GGI | 1.25 | 0.03 | 1.28 |
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KCCA.test | 0 | 0 | 0 |
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PCA.test | 0.29 | 0.00 | 0.30 |
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PLSPM.test | 2.54 | 0.01 | 2.56 |
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gates.test | 0.31 | 0.02 | 0.33 |
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importFile | 0.42 | 0.00 | 0.42 |
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imputeSnpMatrix | 0.55 | 0.08 | 0.62 |
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minP.test | 0.90 | 0.00 | 1.13 |
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plot.GGInetwork | 1.00 | 0.11 | 1.11 |
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print.GGItest | 0.07 | 0.00 | 0.06 |
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selectSnps | 0.01 | 0.00 | 0.02 |
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snpMatrixScour | 0.00 | 0.03 | 0.03 |
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summary.GGInetwork | 0.02 | 0.00 | 0.01 |
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summary.GGItest | 0.03 | 0.00 | 0.04 |
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tProd.test | 0.36 | 0.01 | 0.37 |
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tTS.test | 0.35 | 0.00 | 0.34 |
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GeneGeneInteR.Rcheck/examples_x64/GeneGeneInteR-Ex.timings:
name | user | system | elapsed
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CCA.test | 0.77 | 0.01 | 0.84 |
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CLD.test | 1.48 | 0.00 | 1.52 |
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GBIGM.test | 4.39 | 0.00 | 4.39 |
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GGI | 1.97 | 0.00 | 1.99 |
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KCCA.test | 0 | 0 | 0 |
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PCA.test | 0.4 | 0.0 | 0.4 |
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PLSPM.test | 3.17 | 0.02 | 3.19 |
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gates.test | 0.4 | 0.0 | 0.5 |
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importFile | 0.57 | 0.02 | 0.60 |
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imputeSnpMatrix | 0.63 | 0.00 | 0.62 |
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minP.test | 1.62 | 0.03 | 1.67 |
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plot.GGInetwork | 1.28 | 0.00 | 1.28 |
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print.GGItest | 0.07 | 0.01 | 0.08 |
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selectSnps | 0 | 0 | 0 |
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snpMatrixScour | 0.03 | 0.00 | 0.04 |
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summary.GGInetwork | 0.02 | 0.00 | 0.02 |
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summary.GGItest | 0.03 | 0.00 | 0.03 |
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tProd.test | 0.50 | 0.02 | 0.52 |
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tTS.test | 0.5 | 0.0 | 0.5 |
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