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This page was generated on 2015-10-27 17:32:38 -0400 (Tue, 27 Oct 2015).
| Package 397/1104 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | |||||
| GeneBreak 1.0.0 Evert van den Broek
| linux1.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK |  | |||||
| windows1.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | | |||||
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | TIMEOUT | skipped | skipped | ||||||
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK | |
| Package: GeneBreak |
| Version: 1.0.0 |
| Command: rm -rf GeneBreak.buildbin-libdir GeneBreak.Rcheck && mkdir GeneBreak.buildbin-libdir GeneBreak.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GeneBreak.buildbin-libdir GeneBreak_1.0.0.tar.gz >GeneBreak.Rcheck\00install.out 2>&1 && cp GeneBreak.Rcheck\00install.out GeneBreak-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=GeneBreak.buildbin-libdir --install="check:GeneBreak-install.out" --force-multiarch --no-vignettes --timings GeneBreak_1.0.0.tar.gz |
| StartedAt: 2015-10-27 01:58:42 -0400 (Tue, 27 Oct 2015) |
| EndedAt: 2015-10-27 02:03:35 -0400 (Tue, 27 Oct 2015) |
| EllapsedTime: 293.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: GeneBreak.Rcheck |
| Warnings: 0 |
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### Running command:
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### rm -rf GeneBreak.buildbin-libdir GeneBreak.Rcheck && mkdir GeneBreak.buildbin-libdir GeneBreak.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GeneBreak.buildbin-libdir GeneBreak_1.0.0.tar.gz >GeneBreak.Rcheck\00install.out 2>&1 && cp GeneBreak.Rcheck\00install.out GeneBreak-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=GeneBreak.buildbin-libdir --install="check:GeneBreak-install.out" --force-multiarch --no-vignettes --timings GeneBreak_1.0.0.tar.gz
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* using log directory 'C:/biocbld/bbs-3.2-bioc/meat/GeneBreak.Rcheck'
* using R version 3.2.2 Patched (2015-08-16 r69094)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GeneBreak/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GeneBreak' version '1.0.0'
* 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 'GeneBreak' 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 ... 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 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' ... [72s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
CopyNumberBreakPointGenes-class 8.75 0.12 8.88
bpPlot-CopyNumberBreakPoints-method 7.58 0.14 7.72
recurrentGenes-CopyNumberBreakPointGenes-method 7.25 0.25 7.50
bpStats-CopyNumberBreakPoints-method 7.28 0.14 7.42
** running examples for arch 'x64' ... [79s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
CopyNumberBreakPointGenes-class 9.69 0.09 9.78
bpStats-CopyNumberBreakPoints-method 8.24 0.14 8.38
bpPlot-CopyNumberBreakPoints-method 8.16 0.14 8.29
recurrentGenes-CopyNumberBreakPointGenes-method 7.69 0.19 7.88
* 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
GeneBreak.Rcheck/00install.out:
install for i386 * installing *source* package 'GeneBreak' ... ** R ** data ** inst ** preparing package for lazy loading Creating a new generic function for 'segmentData' in package 'GeneBreak' ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded install for x64 * installing *source* package 'GeneBreak' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'GeneBreak' as GeneBreak_1.0.0.zip * DONE (GeneBreak)
GeneBreak.Rcheck/examples_i386/GeneBreak-Ex.timings:
| name | user | system | elapsed | |
| CopyNumberBreakPointGenes-class | 8.75 | 0.12 | 8.88 | |
| CopyNumberBreakPoints-class | 1.79 | 0.16 | 1.95 | |
| accessOptions-CopyNumberBreakPoints-method | 0.83 | 0.06 | 0.89 | |
| addGeneAnnotation-CopyNumberBreakPoints-method | 2.64 | 0.16 | 2.80 | |
| bpFilter-CopyNumberBreakPoints-method | 1.74 | 0.09 | 1.82 | |
| bpGenes-CopyNumberBreakPointGenes-method | 2.95 | 0.22 | 3.18 | |
| bpPlot-CopyNumberBreakPoints-method | 7.58 | 0.14 | 7.72 | |
| bpStats-CopyNumberBreakPoints-method | 7.28 | 0.14 | 7.42 | |
| breakpointData-CopyNumberBreakPoints-method | 1.31 | 0.22 | 1.53 | |
| breakpointsPerGene-CopyNumberBreakPointGenes-method | 3.85 | 0.28 | 4.12 | |
| callData-CopyNumberBreakPoints-method | 1.21 | 0.26 | 1.48 | |
| featureChromosomes-CopyNumberBreakPoints-method | 0.83 | 0.11 | 0.94 | |
| featureInfo-CopyNumberBreakPoints-method | 3.11 | 0.09 | 3.20 | |
| featuresPerGene-CopyNumberBreakPointGenes-method | 2.81 | 0.13 | 2.94 | |
| geneChromosomes-CopyNumberBreakPointGenes-method | 3.41 | 0.12 | 3.53 | |
| geneInfo-CopyNumberBreakPointGenes-method | 2.73 | 0.21 | 2.94 | |
| getBreakpoints | 1.83 | 0.11 | 1.94 | |
| namesFeatures-CopyNumberBreakPoints-method | 0.89 | 0.04 | 0.94 | |
| recurrentGenes-CopyNumberBreakPointGenes-method | 7.25 | 0.25 | 7.50 | |
| sampleNames-CopyNumberBreakPoints-method | 0.89 | 0.08 | 0.96 | |
| segmentData-CopyNumberBreakPoints-method | 1.35 | 0.17 | 1.52 | |
GeneBreak.Rcheck/examples_x64/GeneBreak-Ex.timings:
| name | user | system | elapsed | |
| CopyNumberBreakPointGenes-class | 9.69 | 0.09 | 9.78 | |
| CopyNumberBreakPoints-class | 2.02 | 0.19 | 2.21 | |
| accessOptions-CopyNumberBreakPoints-method | 1.09 | 0.05 | 1.14 | |
| addGeneAnnotation-CopyNumberBreakPoints-method | 3.07 | 0.08 | 3.14 | |
| bpFilter-CopyNumberBreakPoints-method | 1.71 | 0.26 | 1.98 | |
| bpGenes-CopyNumberBreakPointGenes-method | 3.00 | 0.13 | 3.13 | |
| bpPlot-CopyNumberBreakPoints-method | 8.16 | 0.14 | 8.29 | |
| bpStats-CopyNumberBreakPoints-method | 8.24 | 0.14 | 8.38 | |
| breakpointData-CopyNumberBreakPoints-method | 1.42 | 0.14 | 1.57 | |
| breakpointsPerGene-CopyNumberBreakPointGenes-method | 4.04 | 0.35 | 4.39 | |
| callData-CopyNumberBreakPoints-method | 1.41 | 0.26 | 1.67 | |
| featureChromosomes-CopyNumberBreakPoints-method | 0.97 | 0.11 | 1.08 | |
| featureInfo-CopyNumberBreakPoints-method | 3.03 | 0.27 | 3.29 | |
| featuresPerGene-CopyNumberBreakPointGenes-method | 3.20 | 0.16 | 3.36 | |
| geneChromosomes-CopyNumberBreakPointGenes-method | 3.22 | 0.12 | 3.35 | |
| geneInfo-CopyNumberBreakPointGenes-method | 2.96 | 0.22 | 3.17 | |
| getBreakpoints | 2.04 | 0.30 | 2.34 | |
| namesFeatures-CopyNumberBreakPoints-method | 1.08 | 0.09 | 1.17 | |
| recurrentGenes-CopyNumberBreakPointGenes-method | 7.69 | 0.19 | 7.88 | |
| sampleNames-CopyNumberBreakPoints-method | 1.25 | 0.06 | 1.31 | |
| segmentData-CopyNumberBreakPoints-method | 1.40 | 0.23 | 1.64 | |